Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 1 of 29
Found at i:1635 original size:20 final size:20
Alignment explanation
Indices: 1610--1657 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1600 AGGTTTTTCA
*
1610 AATGTATCGATATATTGAAT
1 AATGTATCGATATATTAAAT
*
1630 AATGTATCGATTTATTAAAT
1 AATGTATCGATATATTAAAT
1650 AATGTATC
1 AATGTATC
1658 AATACATTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (20 bp):
AATGTATCGATATATTAAAT
Found at i:12942 original size:184 final size:184
Alignment explanation
Indices: 12633--12996 Score: 710
Period size: 184 Copynumber: 2.0 Consensus size: 184
12623 AGGAATGAGG
*
12633 TCTTATCTATGAAATATCCTTCAATTTAGGTAACTATTCCTAGCATGACTTATTTTAGTATCTTT
1 TCTTATCTATGAAATATCCTTCAATTTAGGTAACTATTCCTAGCATGACTTATGTTAGTATCTTT
12698 GGTGAACCCACTCGTAAAATTTATAGTTGATGGCGTGTAGTAATAGCATGGTGCAATGCATTTCA
66 GGTGAACCCACTCGTAAAATTTATAGTTGATGGCGTGTAGTAATAGCATGGTGCAATGCATTTCA
12763 TAGTGGAATGCTTTATTATAGTTCAATGGCAGATACGTTGTGTTTAATATGCTT
131 TAGTGGAATGCTTTATTATAGTTCAATGGCAGATACGTTGTGTTTAATATGCTT
12817 TCTTATCTATGAAATATCCTTCAATTTAGGTAACTATTCCTAGCATGACTTATGTTAGTATCTTT
1 TCTTATCTATGAAATATCCTTCAATTTAGGTAACTATTCCTAGCATGACTTATGTTAGTATCTTT
12882 GGTGAACCCACTCGTAAAATTTATAGTTGATGGCGTGTAGTAATAGCATGGTGCAATGCATTTCA
66 GGTGAACCCACTCGTAAAATTTATAGTTGATGGCGTGTAGTAATAGCATGGTGCAATGCATTTCA
*
12947 TAGTGGAATGCTTTATTATAGTTCAATGGCTGATACGTTGTGTTTAATAT
131 TAGTGGAATGCTTTATTATAGTTCAATGGCAGATACGTTGTGTTTAATAT
12997 ACTCCACTAG
Statistics
Matches: 178, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 178 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (184 bp):
TCTTATCTATGAAATATCCTTCAATTTAGGTAACTATTCCTAGCATGACTTATGTTAGTATCTTT
GGTGAACCCACTCGTAAAATTTATAGTTGATGGCGTGTAGTAATAGCATGGTGCAATGCATTTCA
TAGTGGAATGCTTTATTATAGTTCAATGGCAGATACGTTGTGTTTAATATGCTT
Found at i:17524 original size:2 final size:2
Alignment explanation
Indices: 17517--17546 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17507 AACTACTTAC
17517 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
17547 GTGTGTCTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17951 original size:21 final size:20
Alignment explanation
Indices: 17927--18037 Score: 82
Period size: 21 Copynumber: 5.5 Consensus size: 20
17917 TAACCATTGA
17927 TATAATTTTAATAATATTTTG
1 TATAATTTTAATAAT-TTTTG
* *
17948 TATAATTTTGATAATCTTTG
1 TATAATTTTAATAATTTTTG
* * *
17968 ATACAATTTTATTAATGTTTG
1 -TATAATTTTAATAATTTTTG
* ** *
17989 ATATAGTTTTTGTAATTTTTTA
1 -TATAATTTTAATAA-TTTTTG
*
18011 TATAATTTTAA-AA-TTTTA
1 TATAATTTTAATAATTTTTG
18029 TATAATTTT
1 TATAATTTT
18038 GATACCTTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
18 14 0.19
20 6 0.08
21 49 0.67
22 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (20 bp):
TATAATTTTAATAATTTTTG
Found at i:18018 original size:42 final size:42
Alignment explanation
Indices: 17906--18041 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
17896 TAATCCATGA
* * * *
17906 TATAAATTTGATAACCATTGATATAATTTTAATAATATTTTG
1 TATAATTTTGATAATCTTTGATATAATTTTAATAATAGTTTG
* *
17948 TATAATTTTGATAATCTTTGATACAATTTTATTAAT-GTTTG
1 TATAATTTTGATAATCTTTGATATAATTTTAATAATAGTTTG
* * * *
17989 ATATAGTTTTTG-TAATTTTTTATATAATTTTAA-AAT--TTTA
1 -TATA-ATTTTGATAATCTTTGATATAATTTTAATAATAGTTTG
18029 TATAATTTTGATA
1 TATAATTTTGATA
18042 CCTTTTAATA
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
38 5 0.06
39 6 0.08
40 3 0.04
41 7 0.09
42 52 0.67
43 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (42 bp):
TATAATTTTGATAATCTTTGATATAATTTTAATAATAGTTTG
Found at i:18075 original size:23 final size:21
Alignment explanation
Indices: 18024--18077 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
18014 AATTTTAAAA
*
18024 TTTTATATAATTTTGATACCT
1 TTTTATATAAATTTGATACCT
* *
18045 TTTAATATAAATTTGATAGCT
1 TTTTATATAAATTTGATACCT
18066 GTTATTATATAA
1 -TT-TTATATAA
18078 TACCTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.67
22 2 0.07
23 7 0.26
ACGTcount: A:0.35, C:0.06, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTTATATAAATTTGATACCT
Found at i:18314 original size:20 final size:21
Alignment explanation
Indices: 18272--18339 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
18262 TTTTGTCATA
* *
18272 TTGATAACATTTGATATAATT
1 TTGATAACCTTTAATATAATT
*
18293 TTGATAACCTTT-ATACAATT
1 TTGATAACCTTTAATATAATT
*
18313 TT-AGTGACCTTTAATATAATT
1 TTGA-TAACCTTTAATATAATT
18334 TTGATA
1 TTGATA
18340 TTATTTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.41
21 21 0.54
22 1 0.03
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (21 bp):
TTGATAACCTTTAATATAATT
Found at i:18338 original size:52 final size:52
Alignment explanation
Indices: 18281--18391 Score: 134
Period size: 52 Copynumber: 2.1 Consensus size: 52
18271 ATTGATAACA
* *
18281 TTTGATATAATTTTGATAA-CCTTTATACAATTTTAGTGACCTTTAATATAAT
1 TTTGATATAATTTTGATAATCCTTTAGACAATTTTAGTG-CATTTAATATAAT
* ** * * *
18333 TTTGATATTATTTTGATAATTTTTTAGATAATTTTGGTGCATTTGATATAAT
1 TTTGATATAATTTTGATAATCCTTTAGACAATTTTAGTGCATTTAATATAAT
18385 TTTGATA
1 TTTGATA
18392 GTATTTATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
52 36 0.72
53 14 0.28
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (52 bp):
TTTGATATAATTTTGATAATCCTTTAGACAATTTTAGTGCATTTAATATAAT
Found at i:18498 original size:63 final size:63
Alignment explanation
Indices: 18376--18498 Score: 176
Period size: 63 Copynumber: 2.0 Consensus size: 63
18366 TTGGTGCATT
* * * * *
18376 TGATATAATTTTGATAGTATTTATAATAGTTTTGTTAACCTTAGATATAATTATGGTAACTTG
1 TGATATAATTCTGATAATATTTATAATAGTTTTGGTAAACTTAGATATAATTATAGTAACTTG
*
18439 TGATATAATTCTGATAATCA-TTATAATAGTTTTGGTAAACTTAGATATAATTTTAGTAAC
1 TGATATAATTCTGATAAT-ATTTATAATAGTTTTGGTAAACTTAGATATAATTATAGTAAC
18499 ACTCGATATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 52 0.98
64 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.46
Consensus pattern (63 bp):
TGATATAATTCTGATAATATTTATAATAGTTTTGGTAAACTTAGATATAATTATAGTAACTTG
Found at i:18507 original size:63 final size:63
Alignment explanation
Indices: 18377--18523 Score: 167
Period size: 63 Copynumber: 2.3 Consensus size: 63
18367 TGGTGCATTT
* * * * * * *
18377 GATATAATTTTGATAGTATTTATAATAGTTTTGTTAACCTTAGATATAATTATGGTAACTTGT
1 GATATAATTCTGATAATATTTATAATAGTTTTGGTAAACTTAGATATAATTATAGTAACCTGC
*
18440 GATATAATTCTGATAATCA-TTATAATAGTTTTGGTAAACTTAGATATAATTTTAGTAACACT-C
1 GATATAATTCTGATAAT-ATTTATAATAGTTTTGGTAAACTTAGATATAATTATAGTAAC-CTGC
18503 GATATAATT-TCGATAA-ATTTA
1 GATATAATTCT-GATAATATTTA
18524 ATATAATTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
61 1 0.01
62 4 0.06
63 65 0.90
64 2 0.03
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (63 bp):
GATATAATTCTGATAATATTTATAATAGTTTTGGTAAACTTAGATATAATTATAGTAACCTGC
Found at i:18539 original size:41 final size:42
Alignment explanation
Indices: 18474--18553 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
18464 ATAGTTTTGG
*
18474 TAAACTTAGATATAATTTTAGTAACACTCGATATAATTTCGA
1 TAAACTTAGATATAATTATAGTAACACTCGATATAATTTCGA
* * ** *
18516 TAAATTTA-ATATAATTATCGTAACTTTTGATATAATTT
1 TAAACTTAGATATAATTATAGTAACACTCGATATAATTT
18554 ATGAAGAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 25 0.78
42 7 0.22
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (42 bp):
TAAACTTAGATATAATTATAGTAACACTCGATATAATTTCGA
Found at i:18680 original size:21 final size:21
Alignment explanation
Indices: 18504--18704 Score: 85
Period size: 21 Copynumber: 9.5 Consensus size: 21
18494 GTAACACTCG
* *
18504 ATATAATTTCGATAA-ATTTA
1 ATATAATTTTGACAACATTTA
* * * *
18524 ATATAATTATCG-TAACTTTTG
1 ATATAATT-TTGACAACATTTA
* * *
18545 ATATAATTTATGAAGAACAATAA
1 ATATAATTT-TG-ACAACATTTA
* *
18568 ATATAATTATT-ACAACCTTTG
1 ATATAATT-TTGACAACATTTA
*
18589 ATATAATTTTGAAAATC-TTTA
1 ATATAATTTTGACAA-CATTTA
* *
18610 CA-AAAATTTTGATAACATTT-
1 -ATATAATTTTGACAACATTTA
* * *
18630 CTGATAATTTTGACAACTTTTG
1 AT-ATAATTTTGACAACATTTA
*
18652 ATACAATTTT-ACTAACATTTA
1 ATATAATTTTGAC-AACATTTA
*
18673 ATATAATTTCGACAAC-TTTCA
1 ATATAATTTTGACAACATTT-A
*
18694 ATATGATTTTG
1 ATATAATTTTG
18705 GCTATTCTTA
Statistics
Matches: 136, Mismatches: 29, Indels: 31
0.69 0.15 0.16
Matches are distributed among these distances:
20 20 0.15
21 97 0.71
22 5 0.04
23 13 0.10
24 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATAATTTTGACAACATTTA
Found at i:18773 original size:20 final size:20
Alignment explanation
Indices: 18726--18802 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
18716 GATTTTAGTA
*
18726 ACATTTGATATAGTTTTGAT
1 ACATTTGATATAGTTTTCAT
18746 A-ATCTTGATATAG-TTTCATT
1 ACAT-TTGATATAGTTTTCA-T
* *
18766 ACATTTGATATAATTTTAAT
1 ACATTTGATATAGTTTTCAT
* *
18786 GACTTTTAATATAGTTT
1 -ACATTTGATATAGTTT
18803 CGGTGGTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 6 0.13
20 21 0.46
21 19 0.41
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.51
Consensus pattern (20 bp):
ACATTTGATATAGTTTTCAT
Found at i:19015 original size:21 final size:21
Alignment explanation
Indices: 18991--19041 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
18981 AATCTTTGGT
18991 ATAATTTTGATAACTTTTGAA
1 ATAATTTTGATAACTTTTGAA
*
19012 ATAATTTTGATAATTTTTGAA
1 ATAATTTTGATAACTTTTGAA
19033 ATAATTTTG
1 ATAATTTTG
19042 TACAATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (21 bp):
ATAATTTTGATAACTTTTGAA
Found at i:19038 original size:12 final size:12
Alignment explanation
Indices: 19000--19040 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
18990 TATAATTTTG
*
19000 ATAACTTTTGAA
1 ATAATTTTTGAA
19012 ATAA-TTTTG--
1 ATAATTTTTGAA
19021 ATAATTTTTGAA
1 ATAATTTTTGAA
19033 ATAATTTT
1 ATAATTTT
19041 GTACAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.15
10 5 0.19
11 5 0.19
12 12 0.46
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (12 bp):
ATAATTTTTGAA
Found at i:19050 original size:21 final size:21
Alignment explanation
Indices: 18991--19050 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
18981 AATCTTTGGT
*
18991 ATAATTTTGATAACTTTTGAA
1 ATAATTTTGATAAATTTTGAA
*
19012 ATAATTTTGATAATTTTTGAA
1 ATAATTTTGATAAATTTTGAA
19033 ATAATTTTG-TACAATTTT
1 ATAATTTTGATA-AATTTT
19051 AATAACATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (21 bp):
ATAATTTTGATAAATTTTGAA
Found at i:24044 original size:20 final size:21
Alignment explanation
Indices: 24019--24072 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
24009 TATTTCAGAC
24019 ATGTATCGATACATTTACT-T
1 ATGTATCGATACATTTACTAT
*
24039 ATGTATCTATACATTTACTAT
1 ATGTATCGATACATTTACTAT
* *
24060 TTATATCGATACA
1 ATGTATCGATACA
24073 AATTGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATTTACTAT
Found at i:25573 original size:2 final size:2
Alignment explanation
Indices: 25566--25601 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
25556 ATTGACAATT
*
25566 TA TA TA TA TA TA TA TA TA TA TA TA TA GCA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA T
25602 TTGTACGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.97
3 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:27865 original size:15 final size:15
Alignment explanation
Indices: 27845--27900 Score: 58
Period size: 15 Copynumber: 3.4 Consensus size: 15
27835 TTTTAGTTAT
27845 GTCATAATTTATTAC
1 GTCATAATTTATTAC
*
27860 GTCATATTTTTTTTAGTTAC
1 GTCATA----ATTTA-TTAC
27880 GTCATAATTTATTAC
1 GTCATAATTTATTAC
27895 GTCATA
1 GTCATA
27901 TTTTTTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 16 0.47
16 4 0.12
19 4 0.12
20 10 0.29
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (15 bp):
GTCATAATTTATTAC
Found at i:27905 original size:34 final size:35
Alignment explanation
Indices: 27829--27919 Score: 157
Period size: 35 Copynumber: 2.6 Consensus size: 35
27819 AAAAAAGAAG
*
27829 TATTTTTTTTAGTTATGTCATAATTTATTACGTCA
1 TATTTTTTTTAGTTACGTCATAATTTATTACGTCA
27864 TATTTTTTTTAGTTACGTCATAATTTATTACGTCA
1 TATTTTTTTTAGTTACGTCATAATTTATTACGTCA
*
27899 TA-TTTTTTTAGTTACATCATA
1 TATTTTTTTTAGTTACGTCATA
27920 TTTTTCTATC
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
34 18 0.33
35 36 0.67
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (35 bp):
TATTTTTTTTAGTTACGTCATAATTTATTACGTCA
Found at i:27918 original size:19 final size:18
Alignment explanation
Indices: 27852--27924 Score: 80
Period size: 19 Copynumber: 4.1 Consensus size: 18
27842 TATGTCATAA
27852 TTTATTACGTCATATTTTT
1 TTTATTACGTCATA-TTTT
*
27871 TTTAGTTACGTCATA---A
1 TTTA-TTACGTCATATTTT
27887 TTTATTACGTCATATTTT
1 TTTATTACGTCATATTTT
*
27905 TTTAGTTACATCATATTTT
1 TTTA-TTACGTCATATTTT
27924 T
1 T
27925 CTATCGGAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
15 10 0.22
16 4 0.09
18 4 0.09
19 18 0.39
20 10 0.22
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.58
Consensus pattern (18 bp):
TTTATTACGTCATATTTT
Found at i:28778 original size:20 final size:19
Alignment explanation
Indices: 28730--28784 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
28720 ATTTTTAATG
28730 TATTTTTATTTATTTATTTA
1 TATTTTTATTT-TTTATTTA
*
28750 TATTATTATTTTTTATTTGA
1 TATTTTTATTTTTTATTT-A
* *
28770 TTTTTTTATCTTTTA
1 TATTTTTATTTTTTA
28785 ATAATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (19 bp):
TATTTTTATTTTTTATTTA
Found at i:30164 original size:17 final size:16
Alignment explanation
Indices: 30131--30165 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
30121 TTTTAGTTGA
*
30131 TTATTTTATTCATTAT
1 TTATTTTATTAATTAT
30147 TTATTTTAATTAATTAT
1 TTATTTT-ATTAATTAT
30164 TT
1 TT
30166 GTTGTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTATTAATTAT
Found at i:30390 original size:50 final size:50
Alignment explanation
Indices: 30315--30573 Score: 419
Period size: 50 Copynumber: 5.2 Consensus size: 50
30305 AGTTGTTGCC
* * *
30315 ATTGTTGACTATCCTTCACCAACCTTTGATAATAGAGAGAGGTGGTCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
* **
30365 ATTGTTGACGATTCTTCATCAACCTTTGACAATAGAGAGAGGTGACCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
* *
30415 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
*
30465 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAAGTGGTCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
* *
30515 ATTGTTGATGATTCTTCACCAACCTTTGACAATAGAGAAAGGTGGTCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
30565 ATTGTTGAC
1 ATTGTTGAC
30574 TCTAAGTATA
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 193 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCATA
Found at i:35039 original size:50 final size:50
Alignment explanation
Indices: 34978--35222 Score: 400
Period size: 50 Copynumber: 4.9 Consensus size: 50
34968 TTGACTAGCA
*
34978 TTCACCAACCTTTGACAATAGAGAGAGGTGGCTATAATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
* *
35028 TTCACCAACCTTTGACAATAGAGAAAGGTGGCAATAATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
* * *
35078 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATTATTATTGACGATTT
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
*
35128 TTCACCAACCTTTGATAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
* * *
35178 TTCACCAACCTTTGACAATAGAGAAAGGCGGTCATAATTGTTGAC
1 TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGAC
35223 TCTAAGTATA
Statistics
Matches: 180, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 180 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (50 bp):
TTCACCAACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTC
Found at i:36022 original size:5 final size:5
Alignment explanation
Indices: 36012--36080 Score: 78
Period size: 5 Copynumber: 14.8 Consensus size: 5
36002 TACCTCGTAA
*
36012 TTAAT TTAAT TTAAT TTAAT TGAAAT TTAAT TTAA- TTAA- TTAAT TT-AT
1 TTAAT TTAAT TTAAT TTAAT T-TAAT TTAAT TTAAT TTAAT TTAAT TTAAT
36060 TT--T TTAA- TTAAT TTAAT TTAA
1 TTAAT TTAAT TTAAT TTAAT TTAA
36081 CTGAAAGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
3 3 0.05
4 16 0.28
5 34 0.60
6 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (5 bp):
TTAAT
Found at i:36066 original size:16 final size:18
Alignment explanation
Indices: 36009--36079 Score: 92
Period size: 16 Copynumber: 3.9 Consensus size: 18
35999 ATTTACCTCG
36009 TAATTAATTTAATTTAATT
1 TAATTAATTTAATTT-ATT
*
36028 TAATTGAAATTTAATTTAAT
1 TAATT--AATTTAATTTATT
36048 TAATTAATTT-ATTT-TT
1 TAATTAATTTAATTTATT
36064 TAATTAATTTAATTTA
1 TAATTAATTTAATTTA
36080 ACTGAAAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
16 11 0.24
17 8 0.17
18 5 0.11
19 5 0.11
20 7 0.15
21 10 0.22
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (18 bp):
TAATTAATTTAATTTATT
Found at i:36291 original size:45 final size:45
Alignment explanation
Indices: 36054--36300 Score: 244
Period size: 44 Copynumber: 5.6 Consensus size: 45
36044 TAATTAATTA
* * * * *
36054 ATTTATTTTTTAATTAATTTAATTTAACTGAAAGT-AAATTTTTT
1 ATTTATTTCTTAATTAATTTAATTTAATTAAAAATAAAATTTTTC
* * * *
36098 ATTTATTTCTTAATTAATTTAATTTAACTAGAAATTAAATTTTTTT
1 ATTTATTTCTTAATTAATTTAATTTAATTA-AAAATAAAATTTTTC
36144 ATTTA--TCTT-A-TAA-TTAATTTAATTAAAAATAAAATTCTTTC
1 ATTTATTTCTTAATTAATTTAATTTAATTAAAAATAAAATT-TTTC
* * * * *
36185 ATTTATCTCTTGATTAATTTAAATTT-ATT--AGAGAAAATTTTTT
1 ATTTATTTCTTAATTAATTT-AATTTAATTAAAAATAAAATTTTTC
* *
36228 ATTTATCTT-TTGATTAATTTAATTTAATTAAAAATAAAAATTTTC
1 ATTTAT-TTCTTAATTAATTTAATTTAATTAAAAATAAAATTTTTC
36273 ATTTATTTCTTAATTAATTTAATTTAAT
1 ATTTATTTCTTAATTAATTTAATTTAAT
36301 CAGAGTCAAA
Statistics
Matches: 172, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
40 9 0.05
41 19 0.11
42 8 0.05
43 28 0.16
44 44 0.26
45 41 0.24
46 18 0.10
47 5 0.03
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (45 bp):
ATTTATTTCTTAATTAATTTAATTTAATTAAAAATAAAATTTTTC
Found at i:41533 original size:3 final size:3
Alignment explanation
Indices: 41525--41569 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
41515 AGCAAGAATA
41525 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
41570 ATATGCTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:41947 original size:19 final size:18
Alignment explanation
Indices: 41914--41956 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
41904 ATATGATATT
*
41914 TATATTTAAAATTTTTAA
1 TATATTAAAAATTTTTAA
*
41932 TATATTAAATAATTTTTAT
1 TATATTAAA-AATTTTTAA
41951 TATATT
1 TATATT
41957 TATATTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTAAAAATTTTTAA
Found at i:43051 original size:11 final size:11
Alignment explanation
Indices: 43037--43061 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43027 TTTATAATTA
43037 TTTTATTCTAT
1 TTTTATTCTAT
43048 TTTTATTCTAT
1 TTTTATTCTAT
43059 TTT
1 TTT
43062 CATAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATTCTAT
Found at i:43541 original size:19 final size:20
Alignment explanation
Indices: 43506--43543 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43496 ATAATTAAAT
43506 TTAAATAAAAATATATTATC
1 TTAAATAAAAATATATTATC
*
43526 TTAATTAAAAAT-TATTAT
1 TTAAATAAAAATATATTAT
43544 TCTAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAATAAAAATATATTATC
Found at i:43554 original size:20 final size:19
Alignment explanation
Indices: 43507--43554 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
43497 TAATTAAATT
43507 TAAATAAAAATATATTATC
1 TAAATAAAAATATATTATC
*
43526 TTAATTAAAAAT-TATTATTC
1 -TAAATAAAAATATATTA-TC
43546 TAAACTAAA
1 TAAA-TAAA
43555 TTGAATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATAAAAATATATTATC
Found at i:43722 original size:71 final size:71
Alignment explanation
Indices: 43638--43786 Score: 235
Period size: 71 Copynumber: 2.1 Consensus size: 71
43628 TAGATCTAAT
*
43638 AACATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATTAACTTATTTTATAACGTAA
1 AACATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGAACTTATTTTATAACGTAA
43703 TAAACA
66 TAAACA
* * * * *
43709 AACATTATTCTTTTGATTAGAAAAAATTATATACGCTTGTTTAATGCACTTATTTTATAATGTAA
1 AACATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGAACTTATTTTATAACGTAA
43774 TAAACA
66 TAAACA
*
43780 AATATTA
1 AACATTA
43787 ATACTCTTCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (71 bp):
AACATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGAACTTATTTTATAACGTAA
TAAACA
Found at i:44548 original size:25 final size:25
Alignment explanation
Indices: 44519--44585 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
44509 GTCAATTCAT
* *
44519 TTTAATTCAAGTTATTATTTATTTAA
1 TTTAATTAAAATTATT-TTTATTTAA
*
44545 -TTAATAAAAAATTATTTTTATTTAA
1 TTTAAT-TAAAATTATTTTTATTTAA
44570 TTTAATTATAAATTAT
1 TTTAATTA-AAATTAT
44586 ATAAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
TTTAATTAAAATTATTTTTATTTAA
Found at i:44574 original size:26 final size:26
Alignment explanation
Indices: 44530--44585 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
44520 TTAATTCAAG
44530 TTATTATTTATTTAATTAATAAAAAA
1 TTATTATTTATTTAATTAATAAAAAA
* *
44556 TTATT-TTTATTTAATTTAATTATAAA
1 TTATTATTTATTTAA-TTAATAAAAAA
44582 TTAT
1 TTAT
44586 ATAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTATTATTTATTTAATTAATAAAAAA
Found at i:44602 original size:14 final size:15
Alignment explanation
Indices: 44576--44604 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44566 TTAATTTAAT
44576 TATAAATTATATAAA
1 TATAAATTATATAAA
44591 TATAAA-TATATAAA
1 TATAAATTATATAAA
44605 AATTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTATATAAA
Found at i:47119 original size:11 final size:11
Alignment explanation
Indices: 47103--47139 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
47093 CCCAAAGTTT
47103 CTTCGTCTATA
1 CTTCGTCTATA
47114 CTTCGTCTATA
1 CTTCGTCTATA
*
47125 CTCCGTCTATA
1 CTTCGTCTATA
47136 CTTC
1 CTTC
47140 CTCCAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.16, C:0.32, G:0.08, T:0.43
Consensus pattern (11 bp):
CTTCGTCTATA
Found at i:56130 original size:3 final size:3
Alignment explanation
Indices: 56122--56157 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
56112 AGCAAGAATA
56122 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
56158 ATATGCTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:58324 original size:71 final size:71
Alignment explanation
Indices: 58248--58396 Score: 244
Period size: 71 Copynumber: 2.1 Consensus size: 71
58238 TAGATCTAAC
*
58248 AATATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGCACTTATTTTATAATGTAA
1 AATATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGCACTTATTTTATAACGTAA
58313 TAAACA
66 TAAACA
* * * *
58319 AATATTATTCTTTTGATTAGAAAAAATTATATGCGCTTGTTTAATGCACTTATTTTATAACGTAA
1 AATATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGCACTTATTTTATAACGTAA
*
58384 TAAATA
66 TAAACA
58390 AATATTA
1 AATATTA
58397 ATACCTTCAC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (71 bp):
AATATTATCCTTTTGATTAGAAAAAATTATATACACTTATTTAATGCACTTATTTTATAACGTAA
TAAACA
Found at i:59219 original size:14 final size:15
Alignment explanation
Indices: 59193--59221 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
59183 TTAATTTAAT
59193 TATAAATTATATAAA
1 TATAAATTATATAAA
59208 TATAAA-TATATAAA
1 TATAAATTATATAAA
59222 AATTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATTATATAAA
Found at i:59792 original size:16 final size:17
Alignment explanation
Indices: 59761--59802 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
59751 TTTTTTTATT
59761 TAAATTAAATTATAAACA
1 TAAA-TAAATTATAAACA
* *
59779 TATATAAA-TATAAATA
1 TAAATAAATTATAAACA
59795 TAAATAAA
1 TAAATAAA
59803 ATATTTTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 14 0.67
17 4 0.19
18 3 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATAAATTATAAACA
Found at i:60548 original size:2 final size:2
Alignment explanation
Indices: 60541--60565 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60531 TGTTCTTTGA
60541 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
60566 CACATACATA
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:65094 original size:21 final size:21
Alignment explanation
Indices: 65069--65112 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
65059 ACATAAAGAA
*
65069 ATATGTGGAGCAGCTAGAAGG
1 ATATGTGGAGCAGCCAGAAGG
65090 ATATGTGGAGCAGCCAGAAGG
1 ATATGTGGAGCAGCCAGAAGG
65111 AT
1 AT
65113 TTATGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.36, T:0.18
Consensus pattern (21 bp):
ATATGTGGAGCAGCCAGAAGG
Found at i:67722 original size:26 final size:27
Alignment explanation
Indices: 67689--67740 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
67679 TAAGATCAAG
* * *
67689 TCTAATAATTATATTTAT-TTATAAAT
1 TCTAATAAATAAAATTATGTTATAAAT
67715 TCTAATAAATAAAATTATGTTATAAA
1 TCTAATAAATAAAATTATGTTATAAA
67741 CAAGAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
TCTAATAAATAAAATTATGTTATAAAT
Found at i:89155 original size:13 final size:13
Alignment explanation
Indices: 89137--89162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89127 ATTTTTTTGG
89137 TGTATCGATACAT
1 TGTATCGATACAT
89150 TGTATCGATACAT
1 TGTATCGATACAT
89163 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:89177 original size:32 final size:34
Alignment explanation
Indices: 89116--89180 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
89106 TACAAGCCAA
**
89116 TGTATCGATACATTTTTTTGGTGTATCGATACAT
1 TGTATCGATACATTACTTTGGTGTATCGATACAT
89150 TGTATCGATACA-TACTTT-GTGTATCGATACA
1 TGTATCGATACATTACTTTGGTGTATCGATACA
89181 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATTACTTTGGTGTATCGATACAT
Found at i:91543 original size:21 final size:21
Alignment explanation
Indices: 91519--91565 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
91509 TTTGAAGCTG
91519 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
91539 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
91560 ATTTTG
1 ATTTTG
91566 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:91705 original size:13 final size:13
Alignment explanation
Indices: 91687--91724 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
91677 ATAAACCCCT
91687 TGTATCGATACAG
1 TGTATCGATACAG
*
91700 TGTATCGATACAT
1 TGTATCGATACAG
*
91713 TATATCGATACA
1 TGTATCGATACA
91725 AAGAATCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:91740 original size:20 final size:20
Alignment explanation
Indices: 91715--91789 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
91705 CGATACATTA
91715 TATCGATACAAAGAATCATG
1 TATCGATACAAAGAATCATG
**
91735 TATCGATACATTGAATTTCCAGATG
1 TATCGATACAAAGAA--T-C--ATG
* *
91760 TATCGATACACAGAAACATG
1 TATCGATACAAAGAATCATG
91780 TATCGATACA
1 TATCGATACA
91790 TTTTGGAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 26 0.58
22 2 0.04
23 1 0.02
25 16 0.36
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (20 bp):
TATCGATACAAAGAATCATG
Found at i:93800 original size:15 final size:15
Alignment explanation
Indices: 93780--93810 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93770 ATTTCGTTTG
*
93780 GAGCTTCTTCATTTT
1 GAGCTTCTTCAATTT
93795 GAGCTTCTTCAATTT
1 GAGCTTCTTCAATTT
93810 G
1 G
93811 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCTTCAATTT
Found at i:95464 original size:79 final size:79
Alignment explanation
Indices: 95297--95500 Score: 223
Period size: 79 Copynumber: 2.6 Consensus size: 79
95287 GAGATAATAA
* * ** * *
95297 CAGGGTTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CAGGGTTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATG
*
95361 ATTAGAAAAAAAAAT
65 ATTAGAAAAAAAAAC
*
95376 CAGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
* ** * *
95440 TTTTGGGAATAAAGC
66 -TTAGAAAAAAAAAC
* * * *
95455 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCC
95501 GATGAAATAA
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 7 0.07
79 98 0.93
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (79 bp):
CAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATGA
TTAGAAAAAAAAAC
Found at i:95495 original size:28 final size:28
Alignment explanation
Indices: 95455--95526 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
95445 GGAATAAAGC
** *
95455 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
95483 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
95511 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
95527 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:95584 original size:52 final size:52
Alignment explanation
Indices: 95515--95851 Score: 176
Period size: 52 Copynumber: 6.4 Consensus size: 52
95505 AAATAACGAG
*
95515 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
** * ** * *
95567 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * *
95620 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
95671 GTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGAAGTA-TCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTG--GTATTTTTGGA-AATAAAATCGGA
* *
95726 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * * * *
95780 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
95831 GTTGGAATATCCTCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
95852 GAGAATTGAT
Statistics
Matches: 213, Mismatches: 45, Indels: 54
0.68 0.14 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 2 0.01
51 37 0.17
52 79 0.37
53 32 0.15
54 25 0.12
55 18 0.08
56 4 0.02
57 4 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:95711 original size:28 final size:27
Alignment explanation
Indices: 95671--95741 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
95661 TAAAACCGGA
**
95671 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* * *
95699 GTTGAAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
95726 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
95742 TTGTGAAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:95754 original size:107 final size:105
Alignment explanation
Indices: 95401--95793 Score: 307
Period size: 107 Copynumber: 3.7 Consensus size: 105
95391 CCTTCGAAAA
* * * * * * *
95401 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTT-GGAATAAAACCGGAGTTGGAG
* *
95466 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
65 TATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * *
95508 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTA-TTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
95573 GTAT-CCC-C-G-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
64 GTATCCCCTCGGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * *
95610 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTGT-GAAAAATTAGTATTTT-G-GAATAAAACCGGAGTT
*
95674 GGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATGAT
61 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * *
95719 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT--AG-TATTTTGGAATAAAACCGGAGTTG
95784 GAGTATCCCC
62 GAGTATCCCC
95794 GATTATAGAA
Statistics
Matches: 218, Mismatches: 47, Indels: 40
0.71 0.15 0.13
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 50 0.23
105 16 0.07
106 17 0.08
107 65 0.30
108 31 0.14
109 29 0.13
110 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.28
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAATAAAACCGGAGTTGGAGT
ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:95807 original size:212 final size:212
Alignment explanation
Indices: 95448--95853 Score: 620
Period size: 212 Copynumber: 1.9 Consensus size: 212
95438 TATTTTGGGA
* * * *
95448 ATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATGAAATAACG
* *
95513 AGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
95578 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAG-GATTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGAG-TTGGAATATCCCCGATTGTGGA
95642 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
95660 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATGAAATAACG
* * *
95724 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTTGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * * *
95789 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCAGAGTTGGAATATCCTCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTGTGG
95853 A
194 A
95854 GAATTGATAA
Statistics
Matches: 175, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.17
212 107 0.61
213 39 0.22
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGAAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCAGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:98236 original size:13 final size:13
Alignment explanation
Indices: 98218--98243 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
98208 ACAAAGATCC
98218 ATGTATCGATACA
1 ATGTATCGATACA
98231 ATGTATCGATACA
1 ATGTATCGATACA
98244 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:98239 original size:33 final size:33
Alignment explanation
Indices: 98197--98263 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
98187 AAAATTTCCA
***
98197 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
98230 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
98263 A
1 A
98264 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:98307 original size:19 final size:18
Alignment explanation
Indices: 98283--98350 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
98273 CAGTAGCTAA
98283 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
98302 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
98317 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
98334 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
98351 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:98323 original size:13 final size:13
Alignment explanation
Indices: 98305--98329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98295 ACAATACTTA
98305 TGTATCGATACAT
1 TGTATCGATACAT
98318 TGTATCGATACA
1 TGTATCGATACA
98330 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98327 original size:32 final size:32
Alignment explanation
Indices: 98286--98348 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
98276 TAGCTAATTA
*
98286 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
98318 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
98349 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:99041 original size:55 final size:55
Alignment explanation
Indices: 98908--99791 Score: 1281
Period size: 55 Copynumber: 16.0 Consensus size: 55
98898 TGGGAAGGTT
* *
98908 TGCCACTAACTTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG-AAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
98962 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCTTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-A
** *
99017 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTGGAAAA
* * *
99078 TGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGATTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
**
99133 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
* *
99188 CGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAGA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
* * *
99243 CGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAA-A
*
99298 TACCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
* * *
99353 TGCCACCAACTTGGGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-A
* *
99408 TGCCACCAACTTTTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT-GAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAA-A
*
99463 TGCCACCAACTTGTGTGGGC-TTCAAGAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
99518 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGTTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
99573 TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTCTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTGGAAAA
99628 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
99683 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
*
99738 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACT-GAAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
99792 GCAGACGGAG
Statistics
Matches: 767, Mismatches: 43, Indels: 40
0.90 0.05 0.05
Matches are distributed among these distances:
53 1 0.00
54 68 0.09
55 631 0.82
56 20 0.03
60 4 0.01
61 40 0.05
62 3 0.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAAA
Found at i:99397 original size:26 final size:26
Alignment explanation
Indices: 99368--99450 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
99358 CCAACTTGGG
99368 TGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGGGCTTTGAAAGGTGTCCTGCTCTT
*** * ** *
99394 TGGGGACTGAAAGGTGCCACCAACTTTT
1 TGGGCTTTGAAAGGTG--TCCTGCTCTT
99422 GTGGGCTTT-AAGAGGTGTCCTGCTCTT
1 -TGGGCTTTGAA-AGGTGTCCTGCTCTT
99449 TG
1 TG
99451 AGGACTGAAA
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
26 15 0.38
27 6 0.15
28 8 0.21
29 10 0.26
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (26 bp):
TGGGCTTTGAAAGGTGTCCTGCTCTT
Found at i:99437 original size:29 final size:29
Alignment explanation
Indices: 99405--99493 Score: 69
Period size: 28 Copynumber: 3.2 Consensus size: 29
99395 GGGGACTGAA
*
99405 AGGTGCCACCAACTTTTGTGGGCTTTAAG
1 AGGTGCCACCAACTTTTGTGGGCTTCAAG
* ** * * *
99434 AGGTG--TCCTGCTCTTTGAGGAC-TGAA-
1 AGGTGCCACCAACT-TTTGTGGGCTTCAAG
*
99460 AGGTGCCACCAACTTGTGTGGGCTTCAAG
1 AGGTGCCACCAACTTTTGTGGGCTTCAAG
99489 AGGTG
1 AGGTG
99494 TCCTGCTCTT
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
26 5 0.12
27 13 0.31
28 14 0.33
29 10 0.24
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTTTGTGGGCTTCAAG
Found at i:99681 original size:27 final size:27
Alignment explanation
Indices: 99651--99736 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
99641 TGTGGGCTTT
99651 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
99678 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
99706 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
99733 GAAA
1 GAAA
99737 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:100801 original size:12 final size:12
Alignment explanation
Indices: 100769--100827 Score: 66
Period size: 13 Copynumber: 4.8 Consensus size: 12
100759 CTTTTCTCTC
*
100769 TTTTTCTTTGTT
1 TTTTTTTTTGTT
100781 TTGTTTTTTTG-T
1 TT-TTTTTTTGTT
**
100793 TTTTTTTTTCCT
1 TTTTTTTTTGTT
100805 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
100818 TTTTTTTTTG
1 TTTTTTTTTG
100828 AAGAGAAGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
11 7 0.17
12 15 0.38
13 18 0.45
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:105482 original size:32 final size:30
Alignment explanation
Indices: 105446--105505 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 30
105436 GAAATCAAAT
105446 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
105478 ACAAAAGCTCTTGAAAAATATAAAATAT
1 ACAAAAGCTCTAGAAAAATATAAAATAT
105506 TTTGATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 5 0.19
31 8 0.31
32 13 0.50
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.22
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:105802 original size:13 final size:13
Alignment explanation
Indices: 105784--105809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105774 ATTTTTTTGG
105784 TGTATCGATACAT
1 TGTATCGATACAT
105797 TGTATCGATACAT
1 TGTATCGATACAT
105810 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:105824 original size:32 final size:34
Alignment explanation
Indices: 105763--105827 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
105753 TACAAGCCAA
**
105763 TGTATCGATACATTTTTTTGGTGTATCGATACAT
1 TGTATCGATACATTACTTTGGTGTATCGATACAT
105797 TGTATCGATACA-TACTTT-GTGTATCGATACA
1 TGTATCGATACATTACTTTGGTGTATCGATACA
105828 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (34 bp):
TGTATCGATACATTACTTTGGTGTATCGATACAT
Found at i:108950 original size:20 final size:20
Alignment explanation
Indices: 108922--108996 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
108912 TCATACCCTG
108922 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
108942 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
108962 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
108982 ATGTATCGATACATT
1 ATGTATCGATACATT
108997 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:108989 original size:40 final size:39
Alignment explanation
Indices: 108922--108999 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
108912 TCATACCCTG
* *
108922 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
108962 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
109000 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:109940 original size:24 final size:24
Alignment explanation
Indices: 109908--109965 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
109898 AGCCTTTGAC
109908 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
109932 CATGCA-TTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
109955 CATGCATTTTT
1 CATGCATTTTT
109966 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.70
24 10 0.30
ACGTcount: A:0.17, C:0.10, G:0.09, T:0.64
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:109972 original size:20 final size:21
Alignment explanation
Indices: 109917--109972 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
109907 CCATGCATTT
**
109917 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
109938 TTTTTTTTATTATGTTTCATGCA
1 --TTTTTTAACATGTTTCATGCA
109961 -TTTTTAACATGT
1 TTTTTTAACATGT
109973 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 10 0.32
23 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:116150 original size:35 final size:35
Alignment explanation
Indices: 116075--116150 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 35
116065 CCTTTAAATG
* *
116075 ACAAAAAAGTCAAAAGCAAAAGCACAAAGAAAAGA
1 ACAAAAAAGTCAAAAGCAAAAGCAAAAAGAAAACA
* **
116110 A-AAAAAAGTGCAAAAGCAAAA-TAAAAAGGGAACA
1 ACAAAAAAGT-CAAAAGCAAAAGCAAAAAGAAAACA
116144 ACAAAAA
1 ACAAAAA
116151 TAAAAAACGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 17 0.50
35 17 0.50
ACGTcount: A:0.70, C:0.12, G:0.14, T:0.04
Consensus pattern (35 bp):
ACAAAAAAGTCAAAAGCAAAAGCAAAAAGAAAACA
Found at i:117467 original size:30 final size:28
Alignment explanation
Indices: 117426--118634 Score: 862
Period size: 27 Copynumber: 42.2 Consensus size: 28
117416 AGTACTGTGA
* *
117426 CCTTTTCAAAGTCCACGACTCAGTGGCATTT
1 CCTTTT-AAAGTCCACAACTCAGTGGCA--C
* *
117457 TCTTTTAAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117485 CCTTTTAAAGTCCACAACTCCGTGGCA-
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
** *
117512 CCTTTTTTAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117540 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117567 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
117594 CCTTTT-AAGTCCACAACTCCA-TGGCA-
1 CCTTTTAAAGTCCACAACT-CAGTGGCAC
* * *
117620 TCTTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117648 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* *
117676 CCTTTT-TAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117703 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117730 CCTTTT-AAGTCCACAACTCCGTGGCATC
1 CCTTTTAAAGTCCACAACTCAGTGGCA-C
*
117758 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117785 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117812 CCTTTTAAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
117840 CCTTTT-AAGTCCACAACTCCGTGGCATC
1 CCTTTTAAAGTCCACAACTCAGTGGCA-C
* **
117868 CCTTTT-AAGACCACAACTTTGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
117895 CCTTTT-AAGTCCACAACTCCA-TGGCAC
1 CCTTTTAAAGTCCACAACT-CAGTGGCAC
*
117922 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
**
117949 CCTTTT-AAGTCCACAACTTTGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* **
117976 CCTTTT-AAGACCACAACTTTGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
118003 CCTTTT-AAGTCCACAACTCCGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* * *
118030 CCTTTT-AAGTCCACAACTCCGTAGCAT
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
*
118057 CCTTTTAAA-TCCACAACTCTGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* * * *
118084 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGC-AC
* * * *
118116 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGC-AC
* * * *
118148 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGC-AC
* * * *
118180 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGC-AC
* * * *
118212 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGC-AC
* * * *
118244 CATTTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTTT-AAAG-TC-CACAACTCAGTGGC-AC
* * * *
118276 CCATTTCAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGC-AC
* * *
118308 CCATTTCAAAGCCCACACAAGTCAGTGGCAC
1 CC-TTTTAAAG-TC-CACAACTCAGTGGCAC
* * *
118339 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* *** * *
118367 CATTGCGAAGCCCACAATTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* * * *
118395 TCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* *
118423 CCTTTTAAAGCCCACACAAGTCAGTGGCAC
1 CCTTTTAAAG-TC-CACAACTCAGTGGCAC
* * *
118453 TCCTTTTAAAGCTCACGCAAGTC-GATGGTA-
1 -CCTTTTAAAG-TC-CACAACTCAG-TGGCAC
* *
118483 CCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTT-AAAGTCCACAACTCAGTGGCAC
* * * * *
118512 ACTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* * * * * *
118540 CCTTTCAAAGCCCACGAGTTAGTGGCAT
1 CCTTTTAAAGTCCACAACTCAGTGGCAC
* * * *
118568 TCTTTCAAAGCCCACGCAAGTCAGTGGCAC
1 CCTTTTAAAGTCCA--CAACTCAGTGGCAC
* * *
118598 CCTTTTAAAGCCCATGCAAGTCAATGGCAAC
1 CCTTTTAAAGTCCA--CAACTCAGTGGC-AC
118629 CCTTTT
1 CCTTTT
118635 CAAATCACCA
Statistics
Matches: 1075, Mismatches: 75, Indels: 56
0.89 0.06 0.05
Matches are distributed among these distances:
26 7 0.01
27 409 0.38
28 290 0.27
29 16 0.01
30 84 0.08
31 56 0.05
32 210 0.20
33 3 0.00
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.24
Consensus pattern (28 bp):
CCTTTTAAAGTCCACAACTCAGTGGCAC
Found at i:117523 original size:27 final size:27
Alignment explanation
Indices: 117458--118085 Score: 1013
Period size: 27 Copynumber: 23.0 Consensus size: 27
117448 GTGGCATTTT
*
117458 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
117486 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
117514 TTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117541 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117568 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
117595 CTTTTAAGTCCACAACTCCATGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
117622 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117649 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
117677 CTTTTTAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117704 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117731 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
117759 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117786 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117813 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
117841 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* **
117869 CTTTTAAGACCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
117896 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
117923 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
117950 CTTTTAAGTCCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* **
117977 CTTTTAAGACCACAACTTTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
118004 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
118031 CTTTTAAGTCCACAACTCCGTAGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
118058 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
118085 C
1 C
118086 ATTTCAAAGC
Statistics
Matches: 561, Mismatches: 35, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
27 426 0.76
28 135 0.24
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:117566 original size:82 final size:81
Alignment explanation
Indices: 117458--118085 Score: 1013
Period size: 82 Copynumber: 7.7 Consensus size: 81
117448 GTGGCATTTT
* * *
117458 CTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCTTTTTTAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGT
117523 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
117541 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
117606 ACAACTCCATGGCATC
66 ACAACTCCGTGGCACC
* * *
117622 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
117687 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
117704 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
117769 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
117786 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
117851 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
* ** *
117869 CTTTTAAGACCACAACTTTGTGGCACCCTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
117934 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
** * **
117950 CTTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGACCACAACTTTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
118015 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* * * *
118031 CTTTTAAGTCCACAACTCCGTAGCATCCTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
118086 ATTTCAAAGC
Statistics
Matches: 512, Mismatches: 29, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
81 221 0.43
82 235 0.46
83 56 0.11
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:118123 original size:32 final size:31
Alignment explanation
Indices: 118068--118638 Score: 603
Period size: 32 Copynumber: 18.8 Consensus size: 31
118058 CTTTTAAATC
* *
118068 CACAACTCTGTGGCACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
118099 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
118131 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
118163 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
118195 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
* *
118227 CACAAGTCGGTGGCAACCATTTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCA-TTTCAAAGCCCA
*
118259 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
*
118291 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCAGTGGC-ACCCATTTCAAAGCCCA
118323 CACAAGTCAGTGGCACCC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
118351 CACAAGTCAGTGGCA-CCATTGCGAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
118379 CACAATTCAGTGGCACTC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
118407 CACAAGTCAGTGGCACCC-TTTTAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
118437 CACAAGTCAGTGGCACTCC-TTTTAAAGCTCA
1 CACAAGTCAGTGGCAC-CCATTTCAAAGCCCA
* * *
118468 CGCAAGTC-GATGGTA-CCTTTTCAAAG-CC-
1 CACAAGTCAG-TGGCACCCATTTCAAAGCCCA
*
118496 CACAAGTCAGTGGCACAC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
*
118524 CACAAGTCAGTGGCATCC-TTTCAAAG-CC-
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* * **
118552 CACGAGTTAGTGGCATTC-TTTCAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
* *
118582 CGCAAGTCAGTGGCACCC-TTTTAAAGCCCA
1 CACAAGTCAGTGGCACCCATTTCAAAGCCCA
** * *
118612 TGCAAGTCAATGGCAACCCTTTTCAAA
1 CACAAGTCAGTGGC-ACCCATTTCAAA
118639 TCACCACTGT
Statistics
Matches: 488, Mismatches: 36, Indels: 31
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.00
28 138 0.28
29 12 0.02
30 68 0.14
31 48 0.10
32 216 0.44
33 4 0.01
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (31 bp):
CACAAGTCAGTGGCACCCATTTCAAAGCCCA
Found at i:118363 original size:28 final size:27
Alignment explanation
Indices: 118323--118554 Score: 52
Period size: 28 Copynumber: 8.1 Consensus size: 27
118313 TCAAAGCCCA
* * *
118323 CACAAGTCAGTGGCACCCTTTCAAAGCC
1 CACAACTCCGTGGCACCCTTT-AAAGTC
* * * ** *
118351 CACAAGTCAGTGGCACCATTGCGAAGCC
1 CACAACTCCGTGGCACCCTT-TAAAGTC
* * * *
118379 CACAATTCAGTGGCACTCTTTCAAAGCC
1 CACAACTCCGTGGCACCCTTT-AAAGTC
* * *
118407 CACAAGTCAGTGGCACCCTTTTAAAGCCC
1 CACAACTCCGTGGCACCC-TTTAAAG-TC
* *
118436 ACACAAGTCAGTGGCACTCCTTTTAAAGCTC
1 -CACAACTCCGTGGCAC-CC-TTTAAAG-TC
* * * * *
118467 ACGCAAGT-CGATGGTACCTTTTCAAAGCC
1 -CACAACTCCG-TGGCACCCTTT-AAAGTC
* * * *
118496 CACAAGTCAGTGGCACACTTTCAAAGCC
1 CACAACTCCGTGGCACCCTTT-AAAGTC
* * * *
118524 CACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAACTCCGTGGCACCCTTT-AAAGTC
118552 CAC
1 CAC
118555 GAGTTAGTGG
Statistics
Matches: 172, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
28 116 0.67
29 10 0.06
30 22 0.13
31 24 0.14
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (27 bp):
CACAACTCCGTGGCACCCTTTAAAGTC
Found at i:119180 original size:20 final size:20
Alignment explanation
Indices: 119152--119226 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
119142 TCATACCCTG
119152 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
119172 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
119192 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
119212 ATGTATCGATACATT
1 ATGTATCGATACATT
119227 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:119219 original size:40 final size:39
Alignment explanation
Indices: 119152--119229 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
119142 TCATACCCTG
* *
119152 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
119192 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
119230 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:120169 original size:24 final size:24
Alignment explanation
Indices: 120137--120194 Score: 109
Period size: 23 Copynumber: 2.5 Consensus size: 24
120127 AGCCTTTGAC
120137 CATGCATTTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
120161 CATGCA-TTTTTTTTATTATGTTT
1 CATGCATTTTTTTTTATTATGTTT
120184 CATGCATTTTT
1 CATGCATTTTT
120195 AACATGTCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 23 0.70
24 10 0.30
ACGTcount: A:0.17, C:0.10, G:0.09, T:0.64
Consensus pattern (24 bp):
CATGCATTTTTTTTTATTATGTTT
Found at i:120201 original size:20 final size:21
Alignment explanation
Indices: 120146--120201 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
120136 CCATGCATTT
**
120146 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
120167 TTTTTTTTATTATGTTTCATGCA
1 --TTTTTTAACATGTTTCATGCA
120190 -TTTTTAACATGT
1 TTTTTTAACATGT
120202 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 10 0.32
23 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:128684 original size:42 final size:42
Alignment explanation
Indices: 128638--128721 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
128628 CTTATACAAT
128638 AATAAAAGAAT-TATT-TTAAAAATTAAAATATTTAATAAAATA
1 AATAAAAGAATAT-TTATTAAAAATTAAAATA-TTAATAAAATA
* * *
128680 AATAAAATAATATTTATTAAAAATTTAAATATTATTAAAATA
1 AATAAAAGAATATTTATTAAAAATTAAAATATTAATAAAATA
128722 TATTTATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 22 0.59
43 15 0.41
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (42 bp):
AATAAAAGAATATTTATTAAAAATTAAAATATTAATAAAATA
Found at i:129223 original size:23 final size:23
Alignment explanation
Indices: 129197--129243 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
129187 ATTTGGCTTC
129197 TCACCGAACTAGTATTTTTCTTT
1 TCACCGAACTAGTATTTTTCTTT
129220 TCACCGAACTAGTATTTTTCTTT
1 TCACCGAACTAGTATTTTTCTTT
129243 T
1 T
129244 AAAAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (23 bp):
TCACCGAACTAGTATTTTTCTTT
Found at i:129424 original size:20 final size:19
Alignment explanation
Indices: 129401--129466 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
129391 TAAAATATTT
129401 ATATTATATTTTATTTTATA
1 ATATTATATTTTATTTT-TA
* *
129421 ATATTTTA-ATTATTTTT-
1 ATATTATATTTTATTTTTA
*
129438 ATATTAT-TTTTATATTGTA
1 ATATTATATTTTAT-TTTTA
*
129457 ATATAATATT
1 ATATTATATT
129467 ATATCTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 10 0.28
18 4 0.11
19 13 0.36
20 9 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATATTATATTTTATTTTTA
Found at i:129425 original size:10 final size:10
Alignment explanation
Indices: 129411--129453 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
129401 ATATTATATT
129411 TTATTTTATA
1 TTATTTTATA
*
129421 ATATTTTA-A
1 TTATTTTATA
129430 TTATTTTTATA
1 TTA-TTTTATA
129441 TTATTTTTATA
1 TTA-TTTTATA
129452 TT
1 TT
129454 GTAATATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 3 0.10
10 12 0.41
11 14 0.48
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATTTTATA
Found at i:129426 original size:15 final size:16
Alignment explanation
Indices: 129396--129433 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
129386 ATTTATAAAA
*
129396 TATTTATATTATATTT
1 TATTTATATAATATTT
129412 TATTT-TATAATATTT
1 TATTTATATAATATTT
*
129427 TAATTAT
1 TATTTAT
129434 TTTTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTTATATAATATTT
Found at i:129924 original size:6 final size:6
Alignment explanation
Indices: 129915--129953 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
129905 TTTTAATAAT
*
129915 AATTTA AATTTA TAAATTA AA-TTA AATTTA AATTTA AAT
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AAT
129954 AAAAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:129960 original size:24 final size:23
Alignment explanation
Indices: 129915--129965 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 23
129905 TTTTAATAAT
129915 AATTTAAATTTATAAATTAAATTA
1 AATTTAAATTTATAAA-TAAATTA
129939 AATTTAAA-TT-TAAATAAA--A
1 AATTTAAATTTATAAATAAATTA
129958 AATTTAAA
1 AATTTAAA
129966 ACTTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.33
21 4 0.15
22 4 0.15
23 2 0.07
24 8 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTAAATTTATAAATAAATTA
Found at i:132274 original size:51 final size:51
Alignment explanation
Indices: 132194--132296 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 51
132184 AGTGTGAACT
* * * *
132194 GAATGATTGAAGCACATATTATTGCTTAATAATTTTCTATGGATGGTTAAA
1 GAATGATTGAAGCACATATTACTGATTAATAATTTTCCATGGATCGTTAAA
*
132245 GAATGATTGAAGCATATATTACTGATTAATAATTTTCCATGGATCGTTAAA
1 GAATGATTGAAGCACATATTACTGATTAATAATTTTCCATGGATCGTTAAA
132296 G
1 G
132297 CCTAGATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (51 bp):
GAATGATTGAAGCACATATTACTGATTAATAATTTTCCATGGATCGTTAAA
Found at i:132454 original size:29 final size:29
Alignment explanation
Indices: 132422--132479 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
132412 GTAAAGGAAG
* *
132422 TATTTTAATTTTTATA-TTGTTAAATTTAT
1 TATTTAAATTTTTATACTT-TTAAAATTAT
132451 TATTTAAATTTTTATACTTTTAAAATTAT
1 TATTTAAATTTTTATACTTTTAAAATTAT
132480 AGTAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
TATTTAAATTTTTATACTTTTAAAATTAT
Found at i:135544 original size:21 final size:21
Alignment explanation
Indices: 135520--135564 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
135510 GTATACATAT
* * *
135520 AATCCTGATATGTATCGATAC
1 AATCCTGACATATATCAATAC
*
135541 AATCTTGACATATATCAATAC
1 AATCCTGACATATATCAATAC
135562 AAT
1 AAT
135565 GGGATGTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (21 bp):
AATCCTGACATATATCAATAC
Found at i:137818 original size:22 final size:22
Alignment explanation
Indices: 137764--137818 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
137754 CTTTGCATTA
*
137764 ATTTTTATCTCTTTTTCTTTTC
1 ATTTTTATCTCTTTTTCCTTTC
**
137786 -TTTTTCCCTCTTCTTTCCTTTC
1 ATTTTTATCTCTT-TTTCCTTTC
137808 ATTTTT-TCTCT
1 ATTTTTATCTCT
137819 CTCTCTCTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 10 0.37
22 12 0.44
23 5 0.19
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTTTTATCTCTTTTTCCTTTC
Found at i:138019 original size:14 final size:14
Alignment explanation
Indices: 138000--138030 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
137990 CATGGCTTTC
138000 CAAACCATAAAATT
1 CAAACCATAAAATT
138014 CAAACCATAAAATT
1 CAAACCATAAAATT
138028 CAA
1 CAA
138031 CGAATGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (14 bp):
CAAACCATAAAATT
Found at i:139489 original size:2 final size:2
Alignment explanation
Indices: 139482--139507 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
139472 GGATGGTTTG
139482 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
139508 TTTATTGCTT
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:142660 original size:11 final size:11
Alignment explanation
Indices: 142646--142672 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
142636 TTAAAAGCGA
142646 AAAAAAAAAAG
1 AAAAAAAAAAG
142657 AAAAAAAAAAG
1 AAAAAAAAAAG
142668 AAAAA
1 AAAAA
142673 TTAAGTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:143024 original size:17 final size:16
Alignment explanation
Indices: 142987--143025 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
142977 GTTAATTATT
*
142987 TTTTTTATTTTTAATG
1 TTTTTTATTTTTAAAG
*
143003 ATTTTTATTTCTTAAAG
1 TTTTTTATTT-TTAAAG
143020 TTTTTT
1 TTTTTT
143026 GATAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTTTAAAG
Found at i:146091 original size:79 final size:79
Alignment explanation
Indices: 145992--146386 Score: 301
Period size: 79 Copynumber: 5.1 Consensus size: 79
145982 CATCATCGGG
* * * **
145992 GATACTCCAACCTCGGTTTTATTTTCAAAACACCGATTTTTCACAATCAGAGATACTTTAACCCC
1 GATACTCTAATCTCGATTTTATTTTCAAAACACCGATTTTTCACAATCAGAGATACTCCAACCCC
*
146057 ATTATTTTCGAGGA
66 GTTATTTTCGAGGA
* ** * * * *
146071 GATACTTTAATCTCGATTTTATTTTCAAAACA-TTAATTTTAATAATCGGAGATACTCCAACCCC
1 GATACTCTAATCTCGATTTTATTTTCAAAACACCGATTTTTCACAATCAGAGATACTCCAACCCC
146135 GTTATTTTCGA-GA
66 GTTATTTTCGAGGA
* * * * *
146148 GGATACTCCAATCCCGGTTTTATTTCCAAAACACCGATGTTTT-AC---C--A-TTACTCCAACC
1 -GATACTCTAATCTCGATTTTATTTTCAAAACACCGAT-TTTTCACAATCAGAGATACTCCAACC
** ** *
146206 TTGTTATTTTTAAGGG
64 CCGTTATTTTCGAGGA
* * * *
146222 GATACTCTAA-CATCGATTTTA-TTTCTAAAACATCAATTTTTCACAATCAGGGATACTCCATCC
1 GATACTCTAATC-TCGATTTTATTTTC-AAAACACCGATTTTTCACAATCAGAGATACTCCAACC
*
146285 CCGTTATTTTCGAGAA
64 CCGTTATTTTCGAGGA
* * * * * * * * * *
146301 GATACTCAAACCCCAATTTTA-TTTCTAAAATACCGATTTTTCACCATCGGGGTTACTCTAACCC
1 GATACTCTAATCTCGATTTTATTTTC-AAAACACCGATTTTTCACAATCAGAGATACTCCAACCC
* *
146365 TGTTATTTTTGAGGA
65 CGTTATTTTCGAGGA
146380 GATACTC
1 GATACTC
146387 CTGTAGAGCA
Statistics
Matches: 245, Mismatches: 57, Indels: 28
0.74 0.17 0.08
Matches are distributed among these distances:
72 8 0.03
73 46 0.19
74 2 0.01
76 2 0.01
77 2 0.01
78 61 0.25
79 119 0.49
80 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
GATACTCTAATCTCGATTTTATTTTCAAAACACCGATTTTTCACAATCAGAGATACTCCAACCCC
GTTATTTTCGAGGA
Found at i:146653 original size:34 final size:34
Alignment explanation
Indices: 146614--146744 Score: 253
Period size: 34 Copynumber: 3.9 Consensus size: 34
146604 ATATACATGT
146614 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
146648 TAACACACCTAACATTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
146682 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
146716 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
146745 CTTAACAAAG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 95 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:146716 original size:25 final size:23
Alignment explanation
Indices: 146619--146721 Score: 74
Period size: 25 Copynumber: 4.4 Consensus size: 23
146609 CATGTTAACA
146619 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
*
146644 CACCTAACA--CACCTAACATTC-T
1 CACCTAACACTCACC-AA-ATACAT
* *
146666 CACCAAACACATCACC-TA-ACA-
1 CACCTAACAC-TCACCAAATACAT
146687 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
146712 CACCTAACAC
1 CACCTAACAC
146722 ACCTAACATT
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
21 13 0.21
22 17 0.28
23 6 0.10
24 3 0.05
25 22 0.36
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (23 bp):
CACCTAACACTCACCAAATACAT
Found at i:151457 original size:34 final size:34
Alignment explanation
Indices: 151418--151548 Score: 253
Period size: 34 Copynumber: 3.9 Consensus size: 34
151408 ATATACATGT
151418 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
151452 TAACACACCTAACATTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
151486 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
151520 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
151549 CTTAACAAAG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 95 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.20
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:151520 original size:25 final size:23
Alignment explanation
Indices: 151423--151525 Score: 74
Period size: 25 Copynumber: 4.4 Consensus size: 23
151413 CATGTTAACA
151423 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
*
151448 CACCTAACA--CACCTAACATTC-T
1 CACCTAACACTCACC-AA-ATACAT
* *
151470 CACCAAACACATCACC-TA-ACA-
1 CACCTAACAC-TCACCAAATACAT
151491 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
151516 CACCTAACAC
1 CACCTAACAC
151526 ACCTAACATT
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
21 13 0.21
22 17 0.28
23 6 0.10
24 3 0.05
25 22 0.36
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (23 bp):
CACCTAACACTCACCAAATACAT
Found at i:151770 original size:78 final size:79
Alignment explanation
Indices: 151606--151832 Score: 266
Period size: 78 Copynumber: 2.9 Consensus size: 79
151596 ATTTTTAACA
* *
151606 ACTCCAACCCTGGTTTTTATTTCCAAAACA-CCATTTTTTTACAATCGGAGATACTCCAACCCCA
1 ACTCCAACCCTGG-TTTTATTTCCAAAACATCGA-TTTTTCACAATCGGAGATACTCCAACCCCA
* * *
151670 TTATTTTCTAGGGGAT
64 TTATTTCCGAAGGGAT
* * * *
151686 ACTCCAA-CCTCGGTTTTATTTTCAAAACATTGATTTTTCACAATCGGGGATACT-CAACCCCTT
1 ACTCCAACCCT-GGTTTTATTTCCAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCCAT
151749 TATTTCCGAAGGGAT
65 TATTTCCGAAGGGAT
* * * *
151764 ACTCCAACCCTGATTTTATTTCCAAAA-ATCGATTTTCCATC-ATTGGAGATACTCCAATCCCAT
1 ACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTTCA-CAATCGGAGATACTCCAACCCCAT
151827 TATTTC
65 TATTTC
151833 TGAGGAAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
77 20 0.16
78 55 0.44
79 40 0.32
80 10 0.08
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (79 bp):
ACTCCAACCCTGGTTTTATTTCCAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCCATT
ATTTCCGAAGGGAT
Found at i:158286 original size:21 final size:22
Alignment explanation
Indices: 158262--158313 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
158252 AATTTAGATC
* *
158262 ATTTTAAATTTAATTTTA-TAA
1 ATTTTAAATTTAAATTAATTAA
* *
158283 ATTTTAAAATTAAATTAATTTA
1 ATTTTAAATTTAAATTAATTAA
158305 ATTTTAAAT
1 ATTTTAAAT
158314 CATTTTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTAAATTTAAATTAATTAA
Found at i:159856 original size:2 final size:2
Alignment explanation
Indices: 159849--159884 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
159839 AATTCATCAA
159849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
159885 TTATGTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:161315 original size:18 final size:19
Alignment explanation
Indices: 161294--161331 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
161284 ATAATATCAA
161294 TATTTAATAAATTTT-TAT
1 TATTTAATAAATTTTGTAT
* *
161312 TATTTATTTAATTTTGTAT
1 TATTTAATAAATTTTGTAT
161331 T
1 T
161332 GAAAATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TATTTAATAAATTTTGTAT
Found at i:162764 original size:23 final size:23
Alignment explanation
Indices: 162734--162780 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
162724 CCCAGTCAAT
162734 ATCACTAAAGATAGTTGATTAAG
1 ATCACTAAAGATAGTTGATTAAG
162757 ATCACTAAAGATAGTTGATTAAG
1 ATCACTAAAGATAGTTGATTAAG
162780 A
1 A
162781 GATGAACCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
ATCACTAAAGATAGTTGATTAAG
Found at i:165586 original size:40 final size:40
Alignment explanation
Indices: 165522--165625 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
165512 TGAATGAGTA
* * **
165522 ATGCAAAAATTACATGAAGGAATTATGGTTTCAGTGATTG
1 ATGCAACAATTACATAAAAAAATTATGGTTTCAGTGATTG
*
165562 ATGCAACAATTACATAAAAAAATTATGGTTTTAGTGATTG
1 ATGCAACAATTACATAAAAAAATTATGGTTTCAGTGATTG
* *
165602 ATGTAACAATTGCA-AAAAGAAATT
1 ATGCAACAATTACATAAAA-AAATT
165626 GTGATTTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.07
40 52 0.93
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (40 bp):
ATGCAACAATTACATAAAAAAATTATGGTTTCAGTGATTG
Found at i:166688 original size:15 final size:15
Alignment explanation
Indices: 166668--166712 Score: 90
Period size: 15 Copynumber: 3.0 Consensus size: 15
166658 AATATTAAAA
166668 AAATATTTTTATATT
1 AAATATTTTTATATT
166683 AAATATTTTTATATT
1 AAATATTTTTATATT
166698 AAATATTTTTATATT
1 AAATATTTTTATATT
166713 TTTATAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATATTTTTATATT
Found at i:166914 original size:53 final size:51
Alignment explanation
Indices: 166834--166969 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 51
166824 GCTAAATGAA
* * * * *
166834 AAAAATTAAAAAATTTTTTTTAGTAAATT-ATGAATTATTA-TTAAAAATTAATT
1 AAAAATTTAAAAATATTTTATATTAAATTCA--AATTATAATTTAAAAA-TAA-T
166887 AAAAATTTAAAAATATTTTATATTAAATCTCAAATTATAATTTAAAAATAAT
1 AAAAATTTAAAAATATTTTATATTAAAT-TCAAATTATAATTTAAAAATAAT
*
166939 AAAAATTTAAAAACATTTTATATTAAATTCA
1 AAAAATTTAAAAATATTTTATATTAAATTCA
166970 GTATTAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
51 3 0.04
52 28 0.38
53 34 0.46
54 8 0.11
55 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (51 bp):
AAAAATTTAAAAATATTTTATATTAAATTCAAATTATAATTTAAAAATAAT
Found at i:166957 original size:52 final size:53
Alignment explanation
Indices: 166866--166966 Score: 161
Period size: 52 Copynumber: 1.9 Consensus size: 53
166856 GTAAATTATG
* *
166866 AATTATTATTAAAAATTAATTAAAAATTTAAAAATATTTTATATTAAATCTCA
1 AATTATAATTAAAAATTAATTAAAAATTTAAAAACATTTTATATTAAATCTCA
166919 AATTATAATTTAAAAA-TAA-TAAAAATTTAAAAACATTTTATATTAAAT
1 AATTATAA-TTAAAAATTAATTAAAAATTTAAAAACATTTTATATTAAAT
166967 TCAGTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
52 28 0.62
53 10 0.22
54 7 0.16
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (53 bp):
AATTATAATTAAAAATTAATTAAAAATTTAAAAACATTTTATATTAAATCTCA
Found at i:167287 original size:51 final size:51
Alignment explanation
Indices: 167213--167438 Score: 262
Period size: 51 Copynumber: 4.4 Consensus size: 51
167203 AAAAATACTA
*
167213 TTTAAAAATATTAAAAAATTAAAAATATTTTATATTAAATTTTAAATTATTAT
1 TTTAAAAA-A-TAAAAAATTAAAAATATTTTATATTAAATTCTAAATTATTAT
* * *
167266 TTTAAAAAATAAAAAATTAAAAATATTTTATATTAAATCCTAAATAACTAT
1 TTTAAAAAATAAAAAATTAAAAATATTTTATATTAAATTCTAAATTATTAT
* *
167317 TTAAAAATAATAAAAATATTAAAAA-ATTTTACATTAAATT-TCAAATTATTA-
1 TTTAAAA-AATAAAAA-ATTAAAAATATTTTATATTAAATTCT-AAATTATTAT
* * *
167368 TTTAAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTCAAAATTA-CAA
1 TTTAAAAAAT-A-AAAAATTAAAAATATTTTATATTAAAT-TCTAAATTATTAT
*
167421 TTTAAAAAATAATAAATT
1 TTTAAAAAATAAAAAATT
167439 TTTTACTATT
Statistics
Matches: 150, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
50 3 0.02
51 66 0.44
52 48 0.32
53 33 0.22
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (51 bp):
TTTAAAAAATAAAAAATTAAAAATATTTTATATTAAATTCTAAATTATTAT
Found at i:167332 original size:103 final size:104
Alignment explanation
Indices: 167204--167436 Score: 348
Period size: 103 Copynumber: 2.2 Consensus size: 104
167194 AGACATATTA
* * *
167204 AAAATACTATTTAAAAATATTAAAAA-ATTAAAAATATTTTATATTAAATTTTAAATTATTATTT
1 AAAATACTATTTAAAAATAATAAAAATATTAAAAA-ATTTTACATTAAATTTCAAATTATTA-TT
167268 TAAAAAAT-A-AAAAATTAAAAATATTTTATATTAAATC-C
64 TAAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTC
*
167306 TAAATAACTATTTAAAAATAATAAAAATATTAAAAAATTTTACATTAAATTTCAAATTATTATTT
1 AAAAT-ACTATTTAAAAATAATAAAAATATTAAAAAATTTTACATTAAATTTCAAATTATTATTT
167371 AAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTC
65 AAAAAATAATAAAAATTAAAAATATTTTATATTAAATCTC
*
167411 AAAATTACAATTTAAAAAATAATAAA
1 AAAA-TACTATTT-AAAAATAATAAA
167437 TTTTTTACTA
Statistics
Matches: 118, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
102 14 0.12
103 45 0.38
104 36 0.31
105 10 0.08
106 13 0.11
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (104 bp):
AAAATACTATTTAAAAATAATAAAAATATTAAAAAATTTTACATTAAATTTCAAATTATTATTTA
AAAAATAATAAAAATTAAAAATATTTTATATTAAATCTC
Found at i:167353 original size:52 final size:52
Alignment explanation
Indices: 167208--167436 Score: 286
Period size: 52 Copynumber: 4.4 Consensus size: 52
167198 ATATTAAAAA
* **
167208 TACTATTTAAAAATATTAAAAAATTAAAAATATTTTATATTAAATTTTAAAT
1 TACTATTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATCCTAAAT
* *
167260 TATTATTTTAAAA-AATAAAAAATTAAAAATATTTTATATTAAATCCTAAAT
1 TACTATTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATCCTAAAT
* * *
167311 AACTATTTAAAAATAATAAAAATATTAAAAA-ATTTTACATTAAAT-TTCAAAT
1 TACTATTTAAAAATAATAAAAA-ATTAAAAATATTTTATATTAAATCCT-AAAT
* *
167363 TATTATTTAAAAAATAAT-AAAAATTAAAAATATTTTATATTAAATCTCAAAAT
1 TACTATTT-AAAAATAATAAAAAATTAAAAATATTTTATATTAAATC-CTAAAT
*
167416 TACAATTTAAAAAATAATAAA
1 TACTATTT-AAAAATAATAAA
167437 TTTTTTACTA
Statistics
Matches: 152, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
51 54 0.36
52 59 0.39
53 37 0.24
54 2 0.01
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (52 bp):
TACTATTTAAAAATAATAAAAAATTAAAAATATTTTATATTAAATCCTAAAT
Found at i:168329 original size:50 final size:51
Alignment explanation
Indices: 168276--168470 Score: 218
Period size: 52 Copynumber: 3.8 Consensus size: 51
168266 TGTAATTAGG
*
168276 AGATTTAATATAAAATATTTTTAAT-TTTATTATTTTTAAATAATAATTTG
1 AGATTTAATATAAAATATTTTTAATATTTATTATTTTTAAATAATAATTTA
** * * * *
168326 AGATTTAATATAAAATATTTAAAAATATTTCTTATTTTTAAATTATTATTCA
1 AGATTTAATATAAAATATTT-TTAATATTTATTATTTTTAAATAATAATTTA
* * * * *
168378 AGATTTAATACAATATACCTTTTAATTTTTTATTATTTTTAAATAAAAATTTA
1 AGATTTAATATAAAATA-TTTTTAA-TATTTATTATTTTTAAATAATAATTTA
*
168431 AGATTTAATAT-AAA-ATTTTTAATCTTTATTA-TTTTAAATA
1 AGATTTAATATAAAATATTTTTAATATTTATTATTTTTAAATA
168471 GTTTTTTAAT
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
48 9 0.08
49 8 0.07
50 26 0.22
51 4 0.03
52 39 0.33
53 33 0.28
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (51 bp):
AGATTTAATATAAAATATTTTTAATATTTATTATTTTTAAATAATAATTTA
Found at i:168617 original size:2 final size:2
Alignment explanation
Indices: 168577--168603 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
168567 TATCTTCCAT
168577 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 T
168604 TATTTAAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:168677 original size:31 final size:30
Alignment explanation
Indices: 168611--168692 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
168601 TATTATTTAA
* *
168611 AATATATTTATTATTTTTTAAATGTAGTTCC
1 AATATATATATTATTTTGT-AATGTAGTTCC
* * *
168642 AATATATATATTATTTTGTAATTTGGTATCT
1 AATATATATATTATTTTGTAATGTAGT-TCC
*
168673 AATATA-ATTTTATTTTGTAA
1 AATATATATATTATTTTGTAA
168693 ATTTTTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 19 0.43
31 25 0.57
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (30 bp):
AATATATATATTATTTTGTAATGTAGTTCC
Found at i:168779 original size:48 final size:51
Alignment explanation
Indices: 168693--168807 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 51
168683 TATTTTGTAA
* * * * *
168693 ATTTTTAAATAGTAATTTGAGACTTAATAT-AATTTTTTA-AATTTTTATT
1 ATTTTTAAATAGTAATTTCAAAATTAATATAAAATTTTAAGAATTTTTATT
*
168742 A-TTTTAAATAGTAA-TTCAAAATATAATATAAAATTTTACATGAATTTTTTTT
1 ATTTTTAAATAGTAATTTCAAAAT-TAATATAAAATTTTA-A-GAATTTTTATT
168794 ATTTTTAAATAGTA
1 ATTTTTAAATAGTA
168808 TTTTTATTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
47 5 0.09
48 19 0.35
49 7 0.13
50 1 0.02
52 10 0.19
53 12 0.22
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (51 bp):
ATTTTTAAATAGTAATTTCAAAATTAATATAAAATTTTAAGAATTTTTATT
Done.