Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013738.1 Kokia drynarioides strain JFW-HI SEQ_128766, whole genome shotgun sequence
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: 147981
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Warning! 139 characters in sequence are not A, C, G, or T
Found at i:193 original size:6 final size:6
Alignment explanation
Indices: 178--222 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
168 ACAATTCATA
* *
178 TCACTT TCAATT TCAATT TCACTT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
223 ATTTTGATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:201 original size:18 final size:18
Alignment explanation
Indices: 178--226 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
168 ACAATTCATA
178 TCACTTTCAATTTCAATT
1 TCACTTTCAATTTCAATT
* *
196 TCACTTTCACTTTCACTT
1 TCACTTTCAATTTCAATT
214 TCACTTTCAATTT
1 TCACTTTCAATTT
227 TGATCACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (18 bp):
TCACTTTCAATTTCAATT
Found at i:654 original size:10 final size:11
Alignment explanation
Indices: 639--668 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
629 GCCTCTAATA
639 ATTTTTCTAT-
1 ATTTTTCTATG
649 ATTTTTCTATG
1 ATTTTTCTATG
660 ATTTTTCTA
1 ATTTTTCTA
669 AGTCAGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.67
Consensus pattern (11 bp):
ATTTTTCTATG
Found at i:5649 original size:6 final size:6
Alignment explanation
Indices: 5640--5666 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5630 AAAGCAAAAG
5640 GGTTTA GGTTTA GGTTTA GGTTTA GGT
1 GGTTTA GGTTTA GGTTTA GGTTTA GGT
5667 AAAATAGACT
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:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (6 bp):
GGTTTA
Found at i:6706 original size:34 final size:34
Alignment explanation
Indices: 6668--6738 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
6658 AATAAACACA
*
6668 TTACAGTGAATATAAATGCTCAACTAAAAAACTC
1 TTACAGTGAATATAAATGCTCAACTAAAAAACCC
6702 TTACAGTGAATATAAATGCTCAACTAAAAAACCC
1 TTACAGTGAATATAAATGCTCAACTAAAAAACCC
6736 TTA
1 TTA
6739 GACTAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.27
Consensus pattern (34 bp):
TTACAGTGAATATAAATGCTCAACTAAAAAACCC
Found at i:8832 original size:29 final size:30
Alignment explanation
Indices: 8797--9094 Score: 206
Period size: 29 Copynumber: 10.2 Consensus size: 30
8787 GTGAAATAGT
**
8797 AATTTTTGAAAGTTTAAAGGTTAAAAATGG
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* * * * * *
8827 AATTTTTG-GAGGTTCGGGGGT-AAAGTGT
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* ** *
8855 AATTTTTGGAAGTTTTTAGGTCAAAAATGG
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* *
8885 AA-TTTTGGAAG-TTCG-GGATAAAAATGTG
1 AATTTTTGAAAGTTTCGAGGTTAAAAATG-G
* *
8913 ATTTTTTGAAAATTTCGAGGTTAAAAATGG
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* *
8943 AATTTTTGGAAA-TTT-AAGGGT-AAAATGTG
1 AATTTTT-GAAAGTTTCGAGGTTAAAAATG-G
*
8972 -ATTTTTGGAAGTTTCGAGGTTAAAAATGG
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* * *
9001 AATTTTTGAAAGTTT-GGGGATAAAAATGT
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* * * *
9030 AATTTTTGGAAGTTTTG-GGGTCAAAATGG
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
* * * **
9059 AATTTTTGGAAG-TTCAAGGGTAAAAATAT
1 AATTTTTGAAAGTTTCGAGGTTAAAAATGG
9088 AATTTTT
1 AATTTTT
9095 TGACTGTTTA
Statistics
Matches: 210, Mismatches: 44, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
27 12 0.06
28 34 0.16
29 101 0.48
30 49 0.23
31 14 0.07
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (30 bp):
AATTTTTGAAAGTTTCGAGGTTAAAAATGG
Found at i:8883 original size:58 final size:59
Alignment explanation
Indices: 8758--9094 Score: 328
Period size: 58 Copynumber: 5.8 Consensus size: 59
8748 AAAATCGGGA
** * * **
8758 TCAAAAATAAAATTTTTGGACA-TTCGGGGGT-GAAATAGTAATTTTTGAAAGTTTAAAGG
1 TCAAAAATGGAATTTTTGGA-AGTTCGGGGGTAAAAAT-GTAATTTTTGGAAGTTTCGAGG
* * * **
8817 TTAAAAATGGAATTTTTGGAGGTTCGGGGGT-AAAGTGTAATTTTTGGAAGTTTTTAGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGG
* * * *
8875 TCAAAAATGGAA-TTTTGGAAGTTC-GGGATAAAAATGTGATTTTTTGAAAATTTCGAGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGT-AATTTTTGGAAGTTTCGAGG
* * *** *
8933 TTAAAAATGGAATTTTTGGAAATTTAAGGGT-AAAATGTGATTTTTGGAAGTTTCGAGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGG
* * * * * *
8991 TTAAAAATGGAATTTTTGAAAGTTTGGGGATAAAAATGTAATTTTTGGAAGTTTTGGGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGG
** *
9050 TC-AAAATGGAATTTTTGGAAGTTCAAGGGTAAAAATATAATTTTT
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTT
9095 TGACTGTTTA
Statistics
Matches: 230, Mismatches: 42, Indels: 13
0.81 0.15 0.05
Matches are distributed among these distances:
56 4 0.02
57 17 0.07
58 135 0.59
59 71 0.31
60 3 0.01
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTCGAGG
Found at i:8934 original size:116 final size:117
Alignment explanation
Indices: 8790--9094 Score: 373
Period size: 116 Copynumber: 2.6 Consensus size: 117
8780 TTCGGGGGTG
* * ** *
8790 AAATAGTAATTTTTGAAAGTTTAAAGGTTAAAAATGGAATTTTTGGAGGTTCGGGGGTAAAGTGT
1 AAAT-GTAATTTTTGAAAGTTTAGAGGTTAAAAATGGAATTTTTGGAAGTTCAAGGGTAAAATGT
** *
8855 AATTTTTGGAAGTTTTTAGGTCAAAAATGGAA-TTTTGGAAG-TTCGGGATAA
65 AATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGAAAGTTTCGGGATAA
* * * * *
8906 AAATGTGATTTTTTGAAAATTTCGAGGTTAAAAATGGAATTTTTGGAAATTTAAGGGTAAAATGT
1 AAATGT-AATTTTTGAAAGTTTAGAGGTTAAAAATGGAATTTTTGGAAGTTCAAGGGTAAAATGT
* * *
8971 GATTTTTGGAAGTTTCGAGGTTAAAAATGGAATTTTTGAAAGTTTGGGGATAA
65 AATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGAAAGTTTCGGGATAA
* * * * *
9024 AAATGTAATTTTTGGAAGTTTTG-GGGTCAAAATGGAATTTTTGGAAGTTCAAGGGTAAAAATAT
1 AAATGTAATTTTTGAAAGTTTAGAGGTTAAAAATGGAATTTTTGGAAGTTCAAGGGT-AAAATGT
9088 AATTTTT
65 AATTTTT
9095 TGACTGTTTA
Statistics
Matches: 159, Mismatches: 26, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
115 2 0.01
116 109 0.69
117 33 0.21
118 15 0.09
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (117 bp):
AAATGTAATTTTTGAAAGTTTAGAGGTTAAAAATGGAATTTTTGGAAGTTCAAGGGTAAAATGTA
ATTTTTGGAAGTTTCGAGGTCAAAAATGGAATTTTTGAAAGTTTCGGGATAA
Found at i:10156 original size:12 final size:12
Alignment explanation
Indices: 10139--10173 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10129 TTGTGGTTAT
10139 TAATATTATTAA
1 TAATATTATTAA
* *
10151 TGATATTAGTAA
1 TAATATTATTAA
10163 TAATATTATTA
1 TAATATTATTA
10174 TTATTATACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (12 bp):
TAATATTATTAA
Found at i:10854 original size:6 final size:6
Alignment explanation
Indices: 10845--10907 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
10835 CTTAAGTCAA
* * *
10845 TTAAAA TTAAAT TTAAAT TTAAGA- -TAAAT TTAAAT TTAAAA ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT
10892 TTAAA- -TAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT
10908 CCAACTTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
4 5 0.11
5 3 0.06
6 38 0.81
7 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:10862 original size:11 final size:11
Alignment explanation
Indices: 10843--10922 Score: 63
Period size: 11 Copynumber: 7.2 Consensus size: 11
10833 GTCTTAAGTC
*
10843 AATTAAAATTA
1 AATTTAAATTA
*
10854 AATTTAAATTT
1 AATTTAAATTA
**
10865 AAGATAAATTTA
1 AATTTAAA-TTA
*
10877 AATTTAAAAATA
1 AATTT-AAATTA
10889 AATTTAAA-TA
1 AATTTAAATTA
**
10899 AATTTAAATCC
1 AATTTAAATTA
*
10910 AACTTAAATTA
1 AATTTAAATTA
10921 AA
1 AA
10923 AGGCTTAATC
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
10 10 0.19
11 28 0.53
12 12 0.23
13 3 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:10878 original size:29 final size:28
Alignment explanation
Indices: 10845--10906 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
10835 CTTAAGTCAA
**
10845 TTAAAATTAAATTTAAATTTAAGATAAAT
1 TTAAAATTAAAAATAAATTTAA-ATAAAT
*
10874 TTAAATTTAAAAATAAATTTAAATAAAT
1 TTAAAATTAAAAATAAATTTAAATAAAT
10902 TTAAA
1 TTAAA
10907 TCCAACTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (28 bp):
TTAAAATTAAAAATAAATTTAAATAAAT
Found at i:10891 original size:18 final size:18
Alignment explanation
Indices: 10845--10897 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
10835 CTTAAGTCAA
*
10845 TTAAAATTAAATTTAAAT
1 TTAAAAATAAATTTAAAT
*
10863 TT-AAGATAAATTTAAAT
1 TTAAAAATAAATTTAAAT
10880 TTAAAAATAAATTTAAAT
1 TTAAAAATAAATTTAAAT
10898 AAATTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAAAATAAATTTAAAT
Found at i:11579 original size:6 final size:6
Alignment explanation
Indices: 11568--11634 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
11558 AGCCCAACAG
* * * *
11568 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
11613 ACTTAA AATTTA AATTTA AATT
1 AATTTA AATTTA AATTTA AATT
11635 AATGCCCAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
5 11 0.23
6 36 0.77
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (6 bp):
AATTTA
Found at i:11593 original size:17 final size:17
Alignment explanation
Indices: 11571--11630 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
11561 CCAACAGAAT
11571 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
**
11588 TTAAATTTATTTTAAGT
1 TTAAATTTATTTTAAAA
*
11605 TTAAATTTA-CTTAAAA
1 TTAAATTTATTTTAAAA
11621 TTTAAATTTA
1 -TTAAATTTA
11631 AATTAATGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 4 0.11
17 33 0.89
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:13452 original size:29 final size:29
Alignment explanation
Indices: 13402--13488 Score: 84
Period size: 30 Copynumber: 2.9 Consensus size: 29
13392 GAGGTCTCTA
* * ***
13402 AACTGTCCGAAAATTCCATTTTTACCCCTG
1 AACT-TCCAAAAATACCATTTTTACCCAAC
*
13432 AACTTCCAAAAATCCCATTTTTGACCCAAC
1 AACTTCCAAAAATACCATTTTT-ACCCAAC
*
13462 AACTTCCAAAAATTACCATTTTAACCC
1 AACTTCCAAAAA-TACCATTTTTACCC
13489 TGGATGTCCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
29 16 0.33
30 24 0.50
31 8 0.17
ACGTcount: A:0.34, C:0.31, G:0.05, T:0.30
Consensus pattern (29 bp):
AACTTCCAAAAATACCATTTTTACCCAAC
Found at i:17914 original size:22 final size:21
Alignment explanation
Indices: 17873--17915 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
17863 CTTAGACAAA
*
17873 TAGAGGAAAAATACAGGCGAT
1 TAGAGGAAAAATACACGCGAT
17894 TAGAGGAGAAAAT-CGACGCGAT
1 TAGAGGA-AAAATAC-ACGCGAT
17916 ACAAGGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.44, C:0.12, G:0.30, T:0.14
Consensus pattern (21 bp):
TAGAGGAAAAATACACGCGAT
Found at i:22752 original size:35 final size:35
Alignment explanation
Indices: 22713--22781 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
22703 ATCAGAAAGC
*
22713 AATAAAAGGGAGTGCGATAGTAGACTTCATAACCA
1 AATAAAAGGGAGTGCGATAGCAGACTTCATAACCA
22748 AATAAAAGGGAGTGCGATAGCAGACTTCATAACC
1 AATAAAAGGGAGTGCGATAGCAGACTTCATAACC
22782 TGTAGGGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (35 bp):
AATAAAAGGGAGTGCGATAGCAGACTTCATAACCA
Found at i:25809 original size:47 final size:47
Alignment explanation
Indices: 25754--25872 Score: 202
Period size: 47 Copynumber: 2.5 Consensus size: 47
25744 TTCGAACCCC
25754 AGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAAGGTT
1 AGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAAGGTT
*
25801 AGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAATAGGTT
1 AGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAAGGTT
* * *
25848 AACTTCCTAATGAGATACTGAGAAG
1 AGCTTCCTGATGAGACACTGAGAAG
25873 TGGACCAATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (47 bp):
AGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAAGGTT
Found at i:25993 original size:251 final size:253
Alignment explanation
Indices: 25549--26052 Score: 769
Period size: 251 Copynumber: 2.0 Consensus size: 253
25539 CTTCGAACTC
* * *
25549 AGCTTCCTGATAAGACACTGAGAAGCCGGTCGAAGCAATAAAAGGTTAGCTTCCTGATGAGATAC
1 AGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAACTTCCTAATGAGATAC
* ** *
25614 TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAACAAACGAATTGAAACAAGTGATGCG
66 TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAACAAACGAATTAAAACAAACGACGCG
* * *
25679 GTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAACCAACCCTACGCTCGATGTGAGCAAATC
131 GTCATCTTCCTGATAAGATACTGAGAAGAAGACCAAACCAACCCCACGCTCGATGTGAGCAAATC
* * * * *
25744 TTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAA-GGTT
196 TTCGAACCCCAGCTTCCTGATGAAACACTGAAAAGAAGATCGAAGCAATAAAATGGTT
* * *
25801 AGCTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAATAGGTTAACTTCCTAATGAGATAC
1 AGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAACTTCCTAATGAGATAC
* * * *
25866 TGAGAAGTGGACC-AATTCGTCTTCCTGGTGAGATACAGAGAAGCGAATTAAAACAAACGACGCG
66 TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAACAAACGAATTAAAACAAACGACGCG
* *
25930 GTCATCTTCCTGATAAGATACTGAGAAGAATACCAAACCAACCCCATGCTCGATGTGAGCAAATC
131 GTCATCTTCCTGATAAGATACTGAGAAGAAGACCAAACCAACCCCACGCTCGATGTGAGCAAATC
*
25995 TTCGAACCCCAGCTTCTTGATGAAACACTGAAAAGAAGATCGAAGCAATAAAATGGTT
196 TTCGAACCCCAGCTTCCTGATGAAACACTGAAAAGAAGATCGAAGCAATAAAATGGTT
26053 NNNNNNNNNN
Statistics
Matches: 226, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
251 150 0.66
252 76 0.34
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (253 bp):
AGCTTCCTGATAAGACACTGAGAAGCAGGTCGAAGCAATAAAAGGTTAACTTCCTAATGAGATAC
TGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAACAAACGAATTAAAACAAACGACGCG
GTCATCTTCCTGATAAGATACTGAGAAGAAGACCAAACCAACCCCACGCTCGATGTGAGCAAATC
TTCGAACCCCAGCTTCCTGATGAAACACTGAAAAGAAGATCGAAGCAATAAAATGGTT
Found at i:28720 original size:29 final size:29
Alignment explanation
Indices: 28678--28750 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
28668 TAAACTGTTT
***
28678 AAAAATTCCATTTTT-ACCCCCGAACTTCC
1 AAAAATTCCATTTTTGA-CCAAAAACTTCC
28707 AAAAATTCCATTTTTGACCAAAAACTTCC
1 AAAAATTCCATTTTTGACCAAAAACTTCC
28736 AAAAATTACCATTTT
1 AAAAATT-CCATTTT
28751 GCCCTTGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 31 0.79
30 8 0.21
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAAATTCCATTTTTGACCAAAAACTTCC
Found at i:28799 original size:58 final size:59
Alignment explanation
Indices: 28728--28866 Score: 144
Period size: 58 Copynumber: 2.4 Consensus size: 59
28718 TTTTGACCAA
* *
28728 AAACT-TCCAAAAATTACCATTTTGC-CCTTGGATGTTC-AAAAACTCCATTTTCAACCTCG
1 AAACTCTCC-AAAATTACCATTTTACTCC-TGAATG-TCAAAAAACTCCATTTTCAACCTCG
* *
28787 AAACTCT-CAAAATTACC-TGTTTACTCCTGAATGTCAAAAAATTCCATTTTTAACCTCG
1 AAACTCTCCAAAATTACCAT-TTTACTCCTGAATGTCAAAAAACTCCATTTTCAACCTCG
** *
28845 AATTTTTCCAAAATTACCATTT
1 AAACTCTCCAAAATTACCATTT
28867 CGACCCCGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
57 3 0.04
58 42 0.63
59 20 0.30
60 2 0.03
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.35
Consensus pattern (59 bp):
AAACTCTCCAAAATTACCATTTTACTCCTGAATGTCAAAAAACTCCATTTTCAACCTCG
Found at i:30105 original size:21 final size:21
Alignment explanation
Indices: 30069--30136 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
30059 GGCTATAAAA
* * *
30069 TTTTACTGGTAGAACTGGGAG
1 TTTTACTGATACAACTCGGAG
*
30090 TTTTACTGATACAACTCTGAG
1 TTTTACTGATACAACTCGGAG
* * * *
30111 TTCTACCGATACAACACGGAC
1 TTTTACTGATACAACTCGGAG
30132 TTTTA
1 TTTTA
30137 TTGGTATAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (21 bp):
TTTTACTGATACAACTCGGAG
Found at i:30432 original size:20 final size:20
Alignment explanation
Indices: 30407--30462 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
30397 TTTGGAAAGA
30407 CTTCTACCGATACAACTTTT
1 CTTCTACCGATACAACTTTT
* *
30427 CTTCTATCGATACAAGTTTT
1 CTTCTACCGATACAACTTTT
* *
30447 TTTCTACTGATACAAC
1 CTTCTACCGATACAAC
30463 GAAGCTGCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (20 bp):
CTTCTACCGATACAACTTTT
Found at i:33883 original size:31 final size:30
Alignment explanation
Indices: 33839--33944 Score: 89
Period size: 31 Copynumber: 3.6 Consensus size: 30
33829 AATATTTAAT
*
33839 AAATTTAAGTACCAAATTAGGAAAAATTGTC
1 AAATTCAAGTACCAAATTAGGAAAAA-TGTC
*
33870 AAGTTCAAGTACCAAATT--GAATCAAA----
1 AAATTCAAGTACCAAATTAGGAA--AAATGTC
* *
33896 AAATTTTAAGTACCAAATTAGAAAAAAGTGTC
1 AAA-TTCAAGTACCAAATTAGGAAAAA-TGTC
33928 AAATTCAAGTACCAAAT
1 AAATTCAAGTACCAAAT
33945 ATTATATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
26 2 0.03
27 17 0.29
29 5 0.08
31 32 0.54
32 3 0.05
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.26
Consensus pattern (30 bp):
AAATTCAAGTACCAAATTAGGAAAAATGTC
Found at i:37485 original size:6 final size:6
Alignment explanation
Indices: 37474--37552 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
37464 GGCTCAACAG
* * * *
37474 AATTTA AATTT- ATTTTA AAATTA AATTT- ATTTTA AGTTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
37519 -ATTATA AATTTA AGTTTA AATTTA AATTTA AATT
1 AATT-TA AATTTA AATTTA AATTTA AATTTA AATT
37553 AATGTTCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 9 0.15
6 44 0.75
7 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:37499 original size:17 final size:17
Alignment explanation
Indices: 37474--37552 Score: 104
Period size: 17 Copynumber: 4.6 Consensus size: 17
37464 GGCTCAACAG
37474 AATTTAAATTTATTTTA
1 AATTTAAATTTATTTTA
*
37491 AAATTAAATTTATTTTA
1 AATTTAAATTTATTTTA
* *
37508 AGTTTAAATTTATTATA
1 AATTTAAATTTATTTTA
* *
37525 AATTTAAGTTTAAATTTA
1 AATTTAAATTT-ATTTTA
37543 AATTTAAATT
1 AATTTAAATT
37553 AATGTTCAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
17 39 0.75
18 13 0.25
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTAAATTTATTTTA
Found at i:37513 original size:23 final size:23
Alignment explanation
Indices: 37474--37554 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 23
37464 GGCTCAACAG
*
37474 AATTTAAATTT-ATTTTAAAATTA
1 AATTT-AATTTAAGTTTAAAATTA
*
37497 AATTTATTTTAAGTTT-AAATT-
1 AATTTAATTTAAGTTTAAAATTA
* *
37518 TATTATAAATTTAAGTTTAAATTTA
1 AATT-T-AATTTAAGTTTAAAATTA
*
37543 AATTTAAATTAA
1 AATTTAATTTAA
37555 TGTTCAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.07
22 10 0.22
23 25 0.54
24 5 0.11
25 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AATTTAATTTAAGTTTAAAATTA
Found at i:38254 original size:3 final size:3
Alignment explanation
Indices: 38241--38318 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
38231 TAAATAGCTT
* * * ** *
38241 TAA TGA TAA TAA TAA TAT TAA TAA TAA -ATA TAA TAC TAA TGG TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * *
38286 TAA TTAA TAA TAA TGA TAT TAA TAA TAG TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
38319 TTAAATATTA
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
2 1 0.02
3 50 0.91
4 4 0.07
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:38264 original size:15 final size:15
Alignment explanation
Indices: 38246--38322 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
38236 AGCTTTAATG
38246 ATAATAATAATATTA
1 ATAATAATAATATTA
*
38261 ATAATAA-ATATAATA
1 ATAATAATA-ATATTA
* ** *
38276 CTAATGGTATTAATTA
1 ATAATAATAAT-ATTA
*
38292 ATAATAATGATATTA
1 ATAATAATAATATTA
*
38307 ATAATAGTAATATTA
1 ATAATAATAATATTA
38322 A
1 A
38323 ATATTAAAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 1 0.02
15 35 0.76
16 10 0.22
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (15 bp):
ATAATAATAATATTA
Found at i:38299 original size:19 final size:18
Alignment explanation
Indices: 38241--38317 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
38231 TAAATAGCTT
* *
38241 TAATGATAATAATAATAT
1 TAATGATATTAATAATAA
* * *
38259 TAATAATA-AATATAATAC
1 TAATGATATTA-ATAATAA
*
38277 TAATGGTATTAATTAATAA
1 TAATGATATTAA-TAATAA
*
38296 TAATGATATTAATAATAG
1 TAATGATATTAATAATAA
38314 TAAT
1 TAAT
38318 ATTAAATATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
17 1 0.02
18 29 0.62
19 17 0.36
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.39
Consensus pattern (18 bp):
TAATGATATTAATAATAA
Found at i:39450 original size:30 final size:29
Alignment explanation
Indices: 39408--39559 Score: 121
Period size: 30 Copynumber: 5.1 Consensus size: 29
39398 GAAGGTCCCT
39408 AAACTGTCCAAAAATTTCATTTTTGACCTC
1 AAACT-TCCAAAAATTTCATTTTTGACCTC
*
39438 AAAACTTTCAAAAATTAT-ATATTTT-ACCCTC
1 -AAACTTCCAAAAATT-TCAT-TTTTGA-CCTC
* *
39469 GAACTTCCAAAAATTCCATTTTTGACCTC
1 AAACTTCCAAAAATTTCATTTTTGACCTC
* * **
39498 GAAACTTCCCAAAATTACATTTTTTCCCTC
1 -AAACTTCCAAAAATTTCATTTTTGACCTC
* * * *
39528 TAACCTCCAAAAA-TTCTATTTTTAACCCC
1 AAACTTCCAAAAATTTC-ATTTTTGACCTC
39557 AAA
1 AAA
39560 ACTCTAAAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.02
29 29 0.30
30 52 0.54
31 14 0.14
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.36
Consensus pattern (29 bp):
AAACTTCCAAAAATTTCATTTTTGACCTC
Found at i:39512 original size:60 final size:61
Alignment explanation
Indices: 39409--39609 Score: 216
Period size: 59 Copynumber: 3.4 Consensus size: 61
39399 AAGGTCCCTA
* *
39409 AACTGTCCAAAAATTTCATTTTTGACCTCAAAACTTTCAAAAATTATATATTTTACCCTCG
1 AACTGTCCAAAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTATATATTTTACCCTCG
* * * * *
39470 AACT-TCCAAAAATTCCATTTTTGACCTCGAAACTTCCCAAAATTACAT-TTTTTCCCTCT
1 AACTGTCCAAAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTATATATTTTACCCTCG
* * * * * * *
39529 AAC-CTCCAAAAATTCTATTTTTAACCCCAAAAC-TCTAAAAAATTAT-CATTTTACCCCCG
1 AACTGTCCAAAAATTCCATTTTTGACCTCAAAACTTC-CAAAAATTATATATTTTACCCTCG
*
39588 AA-TGTCCAAAAATTCTATTTTT
1 AACTGTCCAAAAATTCCATTTTT
39610 TATCTCGATT
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
58 2 0.02
59 72 0.62
60 39 0.33
61 4 0.03
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.36
Consensus pattern (61 bp):
AACTGTCCAAAAATTCCATTTTTGACCTCAAAACTTCCAAAAATTATATATTTTACCCTCG
Found at i:39522 original size:31 final size:30
Alignment explanation
Indices: 39408--39521 Score: 133
Period size: 30 Copynumber: 3.8 Consensus size: 30
39398 GAAGGTCCCT
* *
39408 AAACTGTCCAAAAATTTCATTTTTGACCTCA
1 AAACT-TCCAAAAATTACATTTTTGACCTCG
* *
39439 AAACTTTCAAAAATTATATATTTT-ACCCTCG
1 AAACTTCCAAAAATTACAT-TTTTGA-CCTCG
*
39470 -AACTTCCAAAAATTCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTGACCTCG
*
39499 AAACTTCCCAAAATTACATTTTT
1 AAACTTCCAAAAATTACATTTTT
39522 TCCCTCTAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
29 9 0.13
30 48 0.69
31 13 0.19
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCTCG
Found at i:39568 original size:29 final size:29
Alignment explanation
Indices: 39414--39609 Score: 89
Period size: 30 Copynumber: 6.6 Consensus size: 29
39404 CCCTAAACTG
* *
39414 TCCAAAAATT-TCATTTTTGACCTCAAAAC
1 TCCAAAAATTCT-ATTTTTAACCCCAAAAC
* * *
39443 TTTCAAAAATTATATATTTT-ACCCTC-GAAC
1 -TCCAAAAATTCTAT-TTTTAACCC-CAAAAC
* * * *
39473 TTCCAAAAATTCCATTTTTGACCTCGAAAC
1 -TCCAAAAATTCTATTTTTAACCCCAAAAC
* * * *
39503 TTCCCAAAATTAC-ATTTTT-TCCCTCTAACC
1 -TCCAAAAATT-CTATTTTTAACCC-CAAAAC
39533 TCCAAAAATTCTATTTTTAACCCCAAAAC
1 TCCAAAAATTCTATTTTTAACCCCAAAAC
* * * * **
39562 TCTAAAAAAT-TATCATTTTACCCCCGAATG
1 TCCAAAAATTCTAT--TTTTAACCCCAAAAC
39592 TCCAAAAATTCTATTTTT
1 TCCAAAAATTCTATTTTT
39610 TATCTCGATT
Statistics
Matches: 129, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
28 4 0.03
29 38 0.29
30 77 0.60
31 10 0.08
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (29 bp):
TCCAAAAATTCTATTTTTAACCCCAAAAC
Found at i:39611 original size:30 final size:29
Alignment explanation
Indices: 39446--39611 Score: 99
Period size: 30 Copynumber: 5.6 Consensus size: 29
39436 TCAAAACTTT
* *
39446 CAAAAATTATATATTTTACCCTCGAACTTC
1 CAAAAATTCTATTTTTTACCCTCGAA-TTC
* *
39476 CAAAAATTCCATTTTTGA-CCTCGAAACTTC
1 CAAAAATTCTATTTTTTACCCTCG-AA-TTC
* * *
39506 CCAAAATTAC-ATTTTTT-CCCTCTAACCTC
1 CAAAAATT-CTATTTTTTACCCTCGAA-TTC
* * *
39535 CAAAAATTCTATTTTTAACCC-CAAAACTC
1 CAAAAATTCTATTTTTTACCCTC-GAATTC
* * * *
39564 TAAAAAAT-TATCATTTTACCCCCGAATGTC
1 CAAAAATTCTAT-TTTTTACCCTCGAAT-TC
39594 CAAAAATTCTATTTTTTA
1 CAAAAATTCTATTTTTTA
39612 TCTCGATTTT
Statistics
Matches: 106, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
28 4 0.04
29 42 0.40
30 56 0.53
31 4 0.04
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
CAAAAATTCTATTTTTTACCCTCGAATTC
Found at i:39713 original size:28 final size:28
Alignment explanation
Indices: 39680--39741 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
39670 CCCAAATTTC
*
39680 CCAAAATTACCATTTTACCTCCGAGAAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
*
39708 CCAAAATTACCATTTTACCCCCGAGTAT
1 CCAAAATTACCATTTTACCCCCGAGAAT
39736 CCAAAA
1 CCAAAA
39742 AGTCTCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCGAGAAT
Found at i:42685 original size:30 final size:30
Alignment explanation
Indices: 42589--42721 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 30
42579 AAACTTTTAT
* ** *
42589 AAAATCACATTTTAACCATTAAAATTTTTC
1 AAAATTACATTTTAACCCCTAAAATTTTCC
* * *
42619 AAAATTACATTTTAATCCTTAAAATTTTTC
1 AAAATTACATTTTAACCCCTAAAATTTTCC
** **
42649 GTAATTACATTTTAACCCCTAAGCTTTTCC
1 AAAATTACATTTTAACCCCTAAAATTTTCC
* *
42679 AAAATTACACTTTGACCCCTAAACA-TTTCC
1 AAAATTACATTTTAACCCCTAAA-ATTTTCC
*
42709 AAAATCACATTTT
1 AAAATTACATTTT
42722 GACCACAAAC
Statistics
Matches: 84, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
30 84 1.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAAATTTTCC
Found at i:42723 original size:30 final size:29
Alignment explanation
Indices: 42655--42764 Score: 105
Period size: 30 Copynumber: 3.7 Consensus size: 29
42645 TTTCGTAATT
* * *
42655 ACATTTTAACCCCTAAGCTTTTCCAAAATT
1 ACATTTTGACCCCTAAAC-TTTCCAAAATC
*
42685 ACACTTTGACCCCTAAACATTTCCAAAATC
1 ACATTTTGACCCCTAAAC-TTTCCAAAATC
* *
42715 ACATTTTGACCAC-AAACTCCTCCAAAATC
1 ACATTTTGACCCCTAAACT-TTCCAAAATC
* * *
42744 ACATTTTTAACCTTAAACTTT
1 ACATTTTGACCCCTAAACTTT
42765 TCTTAAATTA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
28 1 0.02
29 23 0.35
30 41 0.63
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (29 bp):
ACATTTTGACCCCTAAACTTTCCAAAATC
Found at i:54648 original size:39 final size:38
Alignment explanation
Indices: 54594--55148 Score: 244
Period size: 39 Copynumber: 14.3 Consensus size: 38
54584 GAAAATTCTG
* *
54594 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGTCATCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTCCA-TCATCCA
* * * * *
54633 ATCTTTTACCCCGAGCTTGGGACAAATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGAT-TCCATCATCCA
* ** * *
54672 ATCTCTTACCCCGAG-TCT-AGGCAGATTGAAGTCATTCG
1 ATCTCTTACCCCGAGCT-TGGGGCAGATTCCA-TCATCCA
* * * * * *
54710 ATCTTTTACCCCAAGCCTGTGACAGATCACCATCAAT-CA
1 ATCTCTTACCCCGAGCTTGGGGCAGAT-TCCATC-ATCCA
* * * **
54749 ATCTCTTACCCTGAGCCTGAGGCAGATTGAAGTCATCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTCCA-TCATCCA
* * *
54788 ACCTTTTACCCCGAG-TCTAGGGCAGA-TCACTATCAAT-CA
1 ATCTCTTACCCCGAGCT-TGGGGCAGATTC-C-ATC-ATCCA
* * * * * * *
54827 ATCTCTTACCTCGAGCTTAGGACAAATTACAACCACCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGATT-CCATCATCCA
** * * * * *
54866 ATCTCTTACCCTAATCATGGGACATA-TCACAATCATCCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTC-C-ATCATCCA
* * * * *
54905 ATCTTTTACCCCAAGCTTGGGGTAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCTTGGGGCAGAT-TCCATCATCCA
* * ** *
54944 ATCTTTTACCCCGAGTTTGGGGCAGATTGAAGTCATCCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTCCA-TCATCCA
* * * * *
54983 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAGT-CA
1 ATCTCTTACCCCGAGCTTGGGGCAGAT-TCCATCA-TCCA
* * * * * * *
55022 ATCTCTTACCCCGAGTTTGAGACAAATTGCAATCATTCG
1 ATCTCTTACCCCGAGCTTGGGGCAGATT-CCATCATCCA
* * * * *
55061 ATCTCTTACTCTGAGCTTGGGGTAGATTACCATCAGCCT
1 ATCTCTTACCCCGAGCTTGGGGCAGATT-CCATCATCCA
* *
55100 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTGGGGCAGAT-TCCATCATCCA
55139 ATCTCTTACC
1 ATCTCTTACC
55149 TCTAGCCTAA
Statistics
Matches: 376, Mismatches: 113, Indels: 54
0.69 0.21 0.10
Matches are distributed among these distances:
37 2 0.01
38 32 0.09
39 327 0.87
40 13 0.03
41 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTCCATCATCCA
Found at i:54705 original size:77 final size:78
Alignment explanation
Indices: 54594--54842 Score: 313
Period size: 78 Copynumber: 3.2 Consensus size: 78
54584 GAAAATTCTG
* * * * *
54594 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGTCATCCAATCTTTTACCCCGAGCTTGGGACAAA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTGAAGTCATCCAATCTTTTACCCCGAGCTTGGGACAGA
**
54659 TCACCATCAGCCA
66 TCACCATCAATCA
* * * * * *
54672 ATCTCTTACCCCGAGTCT-AGGCAGATTGAAGTCATTCGATCTTTTACCCCAAGCCTGTGACAGA
1 ATCTCTTACCCCGAGCCTGAGGCAGATTGAAGTCATCCAATCTTTTACCCCGAGCTTGGGACAGA
54736 TCACCATCAATCA
66 TCACCATCAATCA
* * *
54749 ATCTCTTACCCTGAGCCTGAGGCAGATTGAAGTCATCCAACCTTTTACCCCGAGTCTAGGG-CAG
1 ATCTCTTACCCCGAGCCTGAGGCAGATTGAAGTCATCCAATCTTTTACCCCGAG-CTTGGGACAG
*
54813 ATCACTATCAATCA
65 ATCACCATCAATCA
*
54827 ATCTCTTACCTCGAGC
1 ATCTCTTACCCCGAGC
54843 TTAGGACAAA
Statistics
Matches: 144, Mismatches: 25, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
77 65 0.45
78 76 0.53
79 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATTGAAGTCATCCAATCTTTTACCCCGAGCTTGGGACAGA
TCACCATCAATCA
Found at i:54970 original size:195 final size:195
Alignment explanation
Indices: 54703--55167 Score: 529
Period size: 195 Copynumber: 2.4 Consensus size: 195
54693 CAGATTGAAG
* * * * * *
54703 TCATTCGATCTTTTACCCCAAGCCTGTGACAGATCACCATCAATCAATCTCTTACCCTGAGCCTG
1 TCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
* * *
54768 AGGCAGATTGAAGTCATCCAACCTTTTACCCCGAGTCT-AGGGCAGATCACTATCAATCAATCTC
66 AGGCAGATTGAAGTCATCCAACCTTTTACCCCAAGCCTGA-GGCAGATCACCATCAATCAATCTC
* * *
54832 TTACCTCGAGCTTAG-GACAAATTACAACCACCCAATCTCTTACCCTAATCATGGGACATATCAC
130 TTACCCCGAG-TTAGAGACAAATTACAACCACCCAATCTCTTACCCTAAGCATGGGACAGATCAC
54896 AA
194 AA
* * **
54898 TCATCCGATCTTTTACCCCAAGCTTGGGGTAGATCACCATCAACCAATCTTTTACCCCGAGTTTG
1 TCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
* * * *
54963 GGGCAGATTGAAGTCATCCGATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAGTCAATCTCT
66 AGGCAGATTGAAGTCATCCAACCTTTTACCCCAAGCCTGAGGCAGATCACCATCAATCAATCTCT
* * * ** * * * * ** * *
55028 TACCCCGAGTTTGAGACAAATTGCAATCATTCGATCTCTTACTCTGAGCTTGGGGTAGATTACCA
131 TACCCCGAGTTAGAGACAAATTACAACCACCCAATCTCTTACCCTAAGCATGGGACAGATCACAA
* * * * * * * *
55093 TCAGCCTATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCTAGCCTA
1 TCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
55158 AGGCAGATTG
66 AGGCAGATTG
55168 CAACCATTTA
Statistics
Matches: 222, Mismatches: 46, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
194 3 0.01
195 218 0.98
196 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (195 bp):
TCATCCGATCTTTTACCCCAAGCTTGGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCCTG
AGGCAGATTGAAGTCATCCAACCTTTTACCCCAAGCCTGAGGCAGATCACCATCAATCAATCTCT
TACCCCGAGTTAGAGACAAATTACAACCACCCAATCTCTTACCCTAAGCATGGGACAGATCACAA
Found at i:55166 original size:78 final size:78
Alignment explanation
Indices: 54594--55166 Score: 310
Period size: 78 Copynumber: 7.4 Consensus size: 78
54584 GAAAATTCTG
* * * * * * *
54594 ATCTCTTACCTCGAGCTTGGGGCAGATT-GCAGTCATCCAATCTTTTACCCCGAGCTTGGGACAA
1 ATCTCTTACCCCTAGCCTGAGGCAGATTACCA-TCAGCCAATCTTTTACCCCGAGCTTGGGACAG
*
54658 ATCACCATCAGCCA
65 ATCACCATCATCCA
* * ** * * * *
54672 ATCTCTTACCCCGAGTCT-AGGCAGATTGA--AGTCATTCGATCTTTTACCCCAAGCCTGTGACA
1 ATCTCTTACCCCTAGCCTGAGGCAGATT-ACCA-TCAGCCAATCTTTTACCCCGAGCTTGGGACA
54734 GATCACCATCAAT-CA
64 GATCACCATC-ATCCA
* * *
54749 ATCTCTTA-CCCTGAGCCTGAGGCAGATTGA--AGTCATCCAACCTTTTACCCCGAGTCTAGGG-
1 ATCTCTTACCCCT-AGCCTGAGGCAGATT-ACCA-TCAGCCAATCTTTTACCCCGAG-CTTGGGA
*
54810 CAGATCACTATCAAT-CA
62 CAGATCACCATC-ATCCA
* * * * * * * * ** * * *
54827 ATCTCTTACCTCGAG-CTTAGGACAAATTACAACCACCCAATCTCTTACCCTAATCATGGGACAT
1 ATCTCTTACCCCTAGCCTGAGG-CAGATTACCATCAGCCAATCTTTTACCCCGAGCTTGGGACAG
* *
54891 ATCACAATCATCCG
65 ATCACCATCATCCA
* * * * * * * * *
54905 ATCTTTTACCCCAAGCTTGGGGTAGATCACCATCAACCAATCTTTTACCCCGAGTTTGGGGCAGA
1 ATCTCTTACCCCTAGCCTGAGGCAGATTACCATCAGCCAATCTTTTACCCCGAGCTTGGGACAGA
* *
54970 TTGA--AGTCATCCG
66 -TCACCA-TCATCCA
* * * * * * * *
54983 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAGTCAATCTCTTACCCCGAGTTTGAGACAAA
1 ATCTCTTACCCCTAGCCTGAGGCAGATTACCATCAGCCAATCTTTTACCCCGAGCTTGGGACAGA
** * * *
55048 TTGCAATCATTCG
66 TCACCATCATCCA
* * * * * * *
55061 ATCTCTTA-CTCTGAGCTTGGGGTAGATTACCATCAGCCTATCTCTTACCCCGAGCTTGGGGCAG
1 ATCTCTTACCCCT-AGCCTGAGGCAGATTACCATCAGCCAATCTTTTACCCCGAGCTTGGGACAG
*
55125 ATCACCATCAGCCA
65 ATCACCATCATCCA
* *
55139 ATCTCTTACCTCTAGCCTAAGGCAGATT
1 ATCTCTTACCCCTAGCCTGAGGCAGATT
55167 GCAACCATTT
Statistics
Matches: 383, Mismatches: 93, Indels: 38
0.75 0.18 0.07
Matches are distributed among these distances:
76 3 0.01
77 75 0.20
78 289 0.75
79 16 0.04
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (78 bp):
ATCTCTTACCCCTAGCCTGAGGCAGATTACCATCAGCCAATCTTTTACCCCGAGCTTGGGACAGA
TCACCATCATCCA
Found at i:55202 original size:117 final size:117
Alignment explanation
Indices: 54983--55229 Score: 271
Period size: 117 Copynumber: 2.1 Consensus size: 117
54973 AAGTCATCCG
* * ** *
54983 ATCTTTTACCCCAAGCCTGAGGCAGATCACCATCAGTCAATCTCTTACCCCGAGTTTGAGACAAA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAAGACAAA
* * * * * * *
55048 TTGCAATCATTCGATCTCTTACTCTGAGCTTGGGGTAGATTACCATCAGCCT
66 TTGCAACCATTCAATCTCTTACTCTGAGCATGAGGTAGATCACCATCAACCA
* * * * * * *
55100 ATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGCCAATCTCTTACCTCTAGCCTAAGGCAGA
1 ATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAAGACAAA
* * * *
55165 TTGCAACCATTTAATCTTTTAC-CTTGATCATGAGGTAGATCACCGTCAACCA
66 TTGCAACCATTCAATCTCTTACTC-TGAGCATGAGGTAGATCACCATCAACCA
55217 ATCTTTTACCCCG
1 ATCTTTTACCCCG
55230 CGATAAGGGC
Statistics
Matches: 105, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
116 1 0.01
117 104 0.99
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (117 bp):
ATCTTTTACCCCGAGCCTGAGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCCTAAGACAAA
TTGCAACCATTCAATCTCTTACTCTGAGCATGAGGTAGATCACCATCAACCA
Found at i:56675 original size:44 final size:44
Alignment explanation
Indices: 56592--56675 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
56582 ACGCATTGTG
*
56592 CATATATATACAAATATATATCTTGATTTTATTTTTATTTTTTT
1 CATATATATACAAATATATATCTTGATTTTATTTATATTTTTTT
* * *
56636 CATATATATATATATAT-TCATTTTGATTTT-TATTATATTT
1 CATATATATACAAATATAT-ATCTTGATTTTAT-TTATATTT
56676 ATATATGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (44 bp):
CATATATATACAAATATATATCTTGATTTTATTTATATTTTTTT
Found at i:57324 original size:30 final size:29
Alignment explanation
Indices: 57287--57361 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
57277 CTCAAACTTT
* *
57287 TCCAAAATCACATTTTAA-CCTCTAAATTTC
1 TCCAAAATCACATTTTAATCC-C-AAACTCC
* * *
57317 TCTAAAATTACACTTTAATCCCAAACTCC
1 TCCAAAATCACATTTTAATCCCAAACTCC
57346 TCCAAAATCACATTTT
1 TCCAAAATCACATTTT
57362 TACCCTTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 18 0.50
30 16 0.44
31 2 0.06
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (29 bp):
TCCAAAATCACATTTTAATCCCAAACTCC
Found at i:57373 original size:30 final size:29
Alignment explanation
Indices: 57287--57373 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
57277 CTCAAACTTT
* * *
57287 TCCAAAATCACATTTTAACCTCTAAATTTC
1 TCCAAAATCACATTTTACCCT-TAAACTCC
* * *
57317 TCTAAAATTACACTTTAATCCC--AAACTCC
1 TCCAAAATCACA-TTTTA-CCCTTAAACTCC
57346 TCCAAAATCACATTTTTACCCTTAAACT
1 TCCAAAATCACA-TTTTACCCTTAAACT
57374 TTTTTAAATT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
28 3 0.07
29 19 0.44
30 15 0.35
31 4 0.09
32 2 0.05
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (29 bp):
TCCAAAATCACATTTTACCCTTAAACTCC
Found at i:60512 original size:87 final size:88
Alignment explanation
Indices: 60333--60514 Score: 205
Period size: 87 Copynumber: 2.1 Consensus size: 88
60323 TGATTTTTAT
* *
60333 TTTTTTTTGCACTTAATTGAATACTTAAACTTTCAAAATAAATAAAAAAGATCCTCTAACTTTTT
1 TTTTTTTTGCACTTAATTAAATACTTAAACTTTCAAAATAAATAAAAAAGATCCTCAAACTTTTT
* *
60398 CAAAAAAGCAATTAAATCTTTAA
66 CAAAAAAGCAAGTAAATCTCTAA
* * * *
60421 -TTTTTTTGCA-TTCAA-TAAAGTACTTAAACTTTCAATATGAGTGAAAAAA-A-CCTCAAATTT
1 TTTTTTTTGCACTT-AATTAAA-TACTTAAACTTTCAAAATAAAT-AAAAAAGATCCTCAAACTT
*
60481 TTTCAAAAAAGCAAGT-AAGCTCCTAA
63 TTTCAAAAAAGCAAGTAAATCT-CTAA
60507 TTTTTTTT
1 TTTTTTTT
60515 TTTTTGCATA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
85 4 0.05
86 31 0.39
87 39 0.49
88 6 0.08
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (88 bp):
TTTTTTTTGCACTTAATTAAATACTTAAACTTTCAAAATAAATAAAAAAGATCCTCAAACTTTTT
CAAAAAAGCAAGTAAATCTCTAA
Found at i:60661 original size:15 final size:15
Alignment explanation
Indices: 60641--60722 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 15
60631 ATTTGATAAT
*
60641 TTTTTTCTAATTTTA
1 TTTTTTATAATTTTA
*
60656 TTTTTTATATTTTTATAA
1 TTTTTTATA-ATTT-T-A
*
60674 CTTTTATTAAAATTTAATA
1 -TTTT-TTATAATTT--TA
*
60693 TTTTTTTATATTTTTA
1 -TTTTTTATAATTTTA
60709 TTTTTTATAATTTT
1 TTTTTTATAATTTT
60723 TTGCTATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 21 0.40
16 5 0.09
17 1 0.02
18 8 0.15
19 12 0.23
20 6 0.11
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTATAATTTTA
Found at i:65462 original size:20 final size:21
Alignment explanation
Indices: 65432--65475 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
65422 AAGTTACTGT
*
65432 AAAATGAATTT-TTTTTCTTGA
1 AAAATGAATTTATTCTT-TTGA
65453 AAAATG-ATTTATTCTTTTGA
1 AAAATGAATTTATTCTTTTGA
65473 AAA
1 AAA
65476 GTGCAAGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (21 bp):
AAAATGAATTTATTCTTTTGA
Found at i:66319 original size:14 final size:14
Alignment explanation
Indices: 66300--66338 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
66290 TTTCTAAAAG
*
66300 AAAATTATTTTTTA
1 AAAATTATTTTTCA
*
66314 AAAATTATTTTTCG
1 AAAATTATTTTTCA
66328 AAAATTATTTT
1 AAAATTATTTT
66339 CATACGTACG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (14 bp):
AAAATTATTTTTCA
Found at i:71081 original size:2 final size:2
Alignment explanation
Indices: 71074--71101 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
71064 AAAAGGGAAG
71074 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
71102 GGGTGTTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73044 original size:7 final size:7
Alignment explanation
Indices: 73032--73063 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
73022 GAGATAATCC
73032 AAACTGG
1 AAACTGG
73039 AAACTGG
1 AAACTGG
73046 AAACTGG
1 AAACTGG
73053 AAACTGG
1 AAACTGG
73060 AAAC
1 AAAC
73064 AAAACGGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (7 bp):
AAACTGG
Found at i:74653 original size:20 final size:20
Alignment explanation
Indices: 74622--74691 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
74612 TTGTAAAGTG
*
74622 TTAAAATGATTTTGACTTAG-
1 TTAAAATTATTTTGACTT-GT
* *
74642 TTCAAATTATTTTGACATGT
1 TTAAAATTATTTTGACTTGT
*
74662 TTAAAATTATTTTAACTTGATT
1 TTAAAATTATTTTGACTTG--T
74684 TTAAAATT
1 TTAAAATT
74692 TTAAAAATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 1 0.02
20 31 0.76
22 9 0.22
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.50
Consensus pattern (20 bp):
TTAAAATTATTTTGACTTGT
Found at i:75024 original size:23 final size:23
Alignment explanation
Indices: 74993--75039 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
74983 TTCATTTAAT
* *
74993 TTAATCGAACTTGGTCGCGAACA
1 TTAAACGAACATGGTCGCGAACA
* *
75016 TTAAACGAACATGTTCGTGAACA
1 TTAAACGAACATGGTCGCGAACA
75039 T
1 T
75040 ATAATTAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (23 bp):
TTAAACGAACATGGTCGCGAACA
Found at i:75055 original size:24 final size:22
Alignment explanation
Indices: 75026--75069 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
75016 TTAAACGAAC
*
75026 ATGTTCGTGAACATATAATTAAGT
1 ATGTTCATGAACA-AT-ATTAAGT
75050 ATGTTCATGAACAATATTAA
1 ATGTTCATGAACAATATTAA
75070 TGAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 2 0.11
24 12 0.63
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (22 bp):
ATGTTCATGAACAATATTAAGT
Found at i:77203 original size:25 final size:25
Alignment explanation
Indices: 77176--77243 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
77166 AGTAGTTGCA
77176 AAAAT-TATGGCATTTTAAATAAAT
1 AAAATATATGGCATTTTAAATAAAT
77200 AAAATATATGGCATTTTAAATAAAT
1 AAAATATATGGCATTTTAAATAAAT
77225 AAAATATATGGCATTTTAA
1 AAAATATATGGCATTTTAA
77244 CCTTGAGCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 5 0.12
25 38 0.88
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (25 bp):
AAAATATATGGCATTTTAAATAAAT
Found at i:77392 original size:6 final size:6
Alignment explanation
Indices: 77372--77413 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
77362 TGTGTTCTTT
* * *
77372 TTTCTT TTTCT- TTTCCC TTTCTC TTTCTC TTTCTC TCTCTC T
1 TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC TTTCTC T
77414 CTTTTAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTCTC
Found at i:86305 original size:31 final size:31
Alignment explanation
Indices: 86267--86329 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
86257 GTTCTCTAGG
86267 GACCTCCGAGTAAATACTTTAACTTTATTGA
1 GACCTCCGAGTAAATACTTTAACTTTATTGA
86298 GACCTCCGAGTAAATACTTTAACTTTATTGA
1 GACCTCCGAGTAAATACTTTAACTTTATTGA
86329 G
1 G
86330 TATAAAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (31 bp):
GACCTCCGAGTAAATACTTTAACTTTATTGA
Found at i:86987 original size:14 final size:14
Alignment explanation
Indices: 86968--87013 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
86958 GAGCGTTGAC
* *
86968 TGACTATTAACCAT
1 TGACTATTGACAAT
86982 TGACTATTGACAAT
1 TGACTATTGACAAT
*
86996 TGACAATTGACAAT
1 TGACTATTGACAAT
87010 TGAC
1 TGAC
87014 CGTTGACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (14 bp):
TGACTATTGACAAT
Found at i:86992 original size:7 final size:7
Alignment explanation
Indices: 86980--87013 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
86970 ACTATTAACC
*
86980 ATTGACT
1 ATTGACA
86987 ATTGACA
1 ATTGACA
86994 ATTGACA
1 ATTGACA
87001 ATTGACA
1 ATTGACA
87008 ATTGAC
1 ATTGAC
87014 CGTTGACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (7 bp):
ATTGACA
Found at i:95218 original size:93 final size:94
Alignment explanation
Indices: 95035--95203 Score: 258
Period size: 93 Copynumber: 1.8 Consensus size: 94
95025 AAAAAAAAAG
*
95035 AAGAAGAAAAAAGCGGTCGAAAAATCCGCAAAGAGCATTTTAAAACCCAATACATAAAACAAACA
1 AAGAAGAAAAAAGCGGTCGAAAAATCCGCAAAGAGCATTTTAAAACACAATACATAAAACAAACA
95100 AAAAAAAAAGAAAGAAAGAAAGAAAAGAA
66 AAAAAAAAAGAAAGAAAGAAAGAAAAGAA
* *
95129 AAGAAGAAAAAAG-GGTCGAAAAATCTGCAAA-AGGCATTTTAAAACACAATA-TTAAAA-AAA-
1 AAGAAGAAAAAAGCGGTCGAAAAATCCGCAAAGA-GCATTTTAAAACACAATACATAAAACAAAC
95189 AAAAAAAGAAAGAAA
65 AAAAAAA-AAAGAAA
95204 AAGTTGAGAC
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
90 7 0.10
91 10 0.14
92 6 0.09
93 34 0.49
94 13 0.19
ACGTcount: A:0.64, C:0.11, G:0.15, T:0.11
Consensus pattern (94 bp):
AAGAAGAAAAAAGCGGTCGAAAAATCCGCAAAGAGCATTTTAAAACACAATACATAAAACAAACA
AAAAAAAAAGAAAGAAAGAAAGAAAAGAA
Found at i:97128 original size:50 final size:49
Alignment explanation
Indices: 97067--97354 Score: 171
Period size: 50 Copynumber: 5.8 Consensus size: 49
97057 AATAAAGAGA
97067 AAGG-TTGAGGCTGCAACGACGATCCTTGTACCTTAGAAGATGTGATAGG
1 AAGGATTGAGGCTGCAACGACGATCC-TGTACCTTAGAAGATGTGATAGG
* * * * * *
97116 AAGGATTGAGGCTACGACAACGAATCCGGTACCAT-GAA-AAGATGA-AGGG
1 AAGGATTGAGGCTGCAACGACG-ATCCTGTACCTTAGAAGATG-TGATA-GG
* * * * * *
97165 AAAGATTGAGGTTGCAACGACAAACCTTGTACCTTAGAGGATTTGATAGG
1 AAGGATTGAGGCTGCAACGACGATCC-TGTACCTTAGAAGATGTGATAGG
* * * * *
97215 AAGGATTAAGGCTGCAACGACGAATCCAGTACCAT-GAAGATAT-AAAGGG
1 AAGGATTGAGGCTGCAACGACG-ATCCTGTACCTTAGAAGATGTGATA-GG
* * ** * * *
97264 AAAGATTGAGGCCGCAACGGTGAACCCTATACCTTAGAAGATGTAAT-GG
1 AAGGATTGAGGCTGCAACGACG-ATCCTGTACCTTAGAAGATGTGATAGG
* * *
97313 AAAGGATTGAGGAC-GCAACGGCGAATCCGGTACCAT-GAAGAT
1 -AAGGATTGAGG-CTGCAACGACG-ATCCTGTACCTTAGAAGAT
97355 ATAAATGGAA
Statistics
Matches: 180, Mismatches: 45, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
48 8 0.04
49 76 0.42
50 85 0.47
51 11 0.06
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.19
Consensus pattern (49 bp):
AAGGATTGAGGCTGCAACGACGATCCTGTACCTTAGAAGATGTGATAGG
Found at i:97183 original size:99 final size:99
Alignment explanation
Indices: 97058--97408 Score: 363
Period size: 99 Copynumber: 3.6 Consensus size: 99
97048 CACCATGGAA
* * * *
97058 ATAAAGAGAAAGGTTGAGGCTGCAACGACGATCCTTGTACCTTAGAAGATGTGATAGGAAGGATT
1 ATAAAGGGAAAGATTGAGGCCGCAACGACGAACCTTGTACCTTAGAAGATGTGATAGGAAGGATT
* *
97123 GAGGCTACGACAACGAATCCGGTACCATGAAAAG
66 GAGGCTACGACAACGAATCCGGTACCATGAAGAT
* ** * * *
97157 ATGAAGGGAAAGATTGAGGTTGCAACGACAAACCTTGTACCTTAGAGGATTTGATAGGAAGGATT
1 ATAAAGGGAAAGATTGAGGCCGCAACGACGAACCTTGTACCTTAGAAGATGTGATAGGAAGGATT
* * * * *
97222 AAGGCTGCAACGACGAATCCAGTACCATGAAGAT
66 GAGGCTACGACAACGAATCCGGTACCATGAAGAT
** * * *
97256 ATAAAGGGAAAGATTGAGGCCGCAACGGTGAACCCTATACCTTAGAAGATGTAAT-GGAAAGGAT
1 ATAAAGGGAAAGATTGAGGCCGCAACGACGAACCTTGTACCTTAGAAGATGTGATAGG-AAGGAT
97320 TGAGG--ACG-CAACGGCGAATCCGGTACCATGAAGAT
65 TGAGGCTACGACAA---CGAATCCGGTACCATGAAGAT
* * * * * *
97355 ATAAATGGAAAGGTTGAAGTCGTAACGACGAA-CTTGGTACCTTAG-AGACGTGAT
1 ATAAAGGGAAAGATTGAGGCCGCAACGACGAACCTT-GTACCTTAGAAGATGTGAT
97409 GAGAAATATC
Statistics
Matches: 205, Mismatches: 42, Indels: 11
0.79 0.16 0.04
Matches are distributed among these distances:
96 2 0.01
97 1 0.00
98 11 0.05
99 191 0.93
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (99 bp):
ATAAAGGGAAAGATTGAGGCCGCAACGACGAACCTTGTACCTTAGAAGATGTGATAGGAAGGATT
GAGGCTACGACAACGAATCCGGTACCATGAAGAT
Found at i:97362 original size:50 final size:49
Alignment explanation
Indices: 97215--97371 Score: 169
Period size: 50 Copynumber: 3.2 Consensus size: 49
97205 ATTTGATAGG
* * *
97215 AAGGATTAAGGCTGCAACGACGAATCCAGTACCATGAAGATATAAAGGGA
1 AAGGATTGAGGC-GCAACGGCGAATCCAGTACCATGAAGATATAAATGGA
* * * *
97265 AA-GATTGAGGCCGCAACGGTGAACCCTA-TACCTTAGAAGATGT-AATGGA
1 AAGGATTGAGG-CGCAACGGCGAATCC-AGTACCAT-GAAGATATAAATGGA
*
97314 AAGGATTGAGGACGCAACGGCGAATCCGGTACCATGAAGATATAAATGGA
1 AAGGATTGAGG-CGCAACGGCGAATCCAGTACCATGAAGATATAAATGGA
97364 AAGG-TTGA
1 AAGGATTGA
97372 AGTCGTAACG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
49 41 0.47
50 47 0.53
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (49 bp):
AAGGATTGAGGCGCAACGGCGAATCCAGTACCATGAAGATATAAATGGA
Found at i:97465 original size:198 final size:196
Alignment explanation
Indices: 96967--97517 Score: 474
Period size: 198 Copynumber: 2.8 Consensus size: 196
96957 AAATAAGAAA
* * * * * * * * * *
96967 GGAAAGGTTGAAGCCACAACGGCAAGCCTTGTACCTTAAAAGACATAAT-GCGAAAGATCGAGTT
1 GGAAAGATTGAAGTCGCAACGACAAACCTTGTACCTTAGAGGACGTGATAG-GAAAGATCGAGTC
* * * * * * * *
97031 CGCAACGACAGATCTAGCACCATGGAA-ATAAAGAGAAAGGTTGAGGCTGCAACGACGATCCTTG
65 CGCAACGACGGATCTAGTACCATGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTA
* *
97095 TACCTTAGAAGATGTGATAGGAAGGATTGAGGCTACGACAACGAATCCGGTACCATGAAAAGATG
130 TACCTTAGAAGATGTAATAGGAAGGATTGAGGC-ACGACAACGAATCCGGTACCATGAAAAGATA
97160 AAG
194 AAG
* * ** * ** * *
97163 GGAAAGATTGAGGTTGCAACGACAAACCTTGTACCTTAGAGGATTTGATAGGAAGGATTAAGGCT
1 GGAAAGATTGAAGTCGCAACGACAAACCTTGTACCTTAGAGGACGTGATAGGAAAGATCGAGTCC
* * * **
97228 GCAACGACGAATCCAGTACCATGAAGATATAAAGGGAAAGATTGAGGCCGCAACGGTGAACCCTA
66 GCAACGACGGATCTAGTACCATGAA-ATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTA
* *
97293 TACCTTAGAAGATGTAAT-GGAAAGGATTGAGG-ACG-CAACGGCGAATCCGGTACCATGAAGAT
130 TACCTTAGAAGATGTAATAGG-AAGGATTGAGGCACGACAA---CGAATCCGGTACCATGAAAAG
*
97355 ATAAAT
191 ATAAAG
* * * *
97361 GGAAAGGTTGAAGTCGTAACGACGAA-CTTGGTACCTTAGA-GACGTGAT-GAGAAATATCGAGT
1 GGAAAGATTGAAGTCGCAACGACAAACCTT-GTACCTTAGAGGACGTGATAG-GAAAGATCGAGT
* * ** *
97423 CCGCAATGACGGATCTAGTACCATAGAAATATAAAGGGGAAAGGTTAAGGCCATAACGATGAACC
64 CCGCAACGACGGATCTAGTACCAT-GAAATATAAA-GGGAAAGGTTGAGGCCGCAACGACGAACC
* * * *
97488 TTGTACCCTAGAAACATG--ATAGGAAGGATT
127 CTATACCTTAG-AAGATGTAATAGGAAGGATT
97518 AAAGCCGTAA
Statistics
Matches: 281, Mismatches: 61, Indels: 25
0.77 0.17 0.07
Matches are distributed among these distances:
195 3 0.01
196 69 0.25
197 56 0.20
198 148 0.53
199 5 0.02
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (196 bp):
GGAAAGATTGAAGTCGCAACGACAAACCTTGTACCTTAGAGGACGTGATAGGAAAGATCGAGTCC
GCAACGACGGATCTAGTACCATGAAATATAAAGGGAAAGGTTGAGGCCGCAACGACGAACCCTAT
ACCTTAGAAGATGTAATAGGAAGGATTGAGGCACGACAACGAATCCGGTACCATGAAAAGATAAA
G
Found at i:97953 original size:113 final size:113
Alignment explanation
Indices: 97749--98303 Score: 695
Period size: 113 Copynumber: 4.9 Consensus size: 113
97739 GAAGCAGATT
** *
97749 AAAACAACGAAGCCAAGCTTTACGTCCCTGAGGATACAGTGAAGTGGAGTAAGACTTCAAATCTC
1 AAAACAACGAAGCCAAGCTCAACGTCCCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
* * * *
97814 ATCTTCCTAGTGAGGTACAGAGAAGTGGGTTAAACAGTGTATTGAATA
66 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACAATGTGTTGAATA
* * * * * *
97862 AAAACAACGAAGCTAAGGTTAACGTCCCTGAAGATACAGTGGAGTGGAGTGAGACTTCAAATCCC
1 AAAACAACGAAGCCAAGCTCAACGTCCCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
* * * *
97927 ATCTTCTTGGTGAGGTACAAATAAGTGGGTCAAAGAATGTGTTGAATCA
66 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACAATGTGTTGAAT-A
* *
97976 AAAA-AACGAAGCCAAGCTCAACGTCCTTGAGGATACAGTGAAGAGGAGTGAGACTTCAAATCTC
1 AAAACAACGAAGCCAAGCTCAACGTCCCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
* * * *
98040 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAATACAGTATGTTAAATC
66 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAA-ACAATGTGTTGAATA
* * ** *
98089 AAAACAACGAAGTCGAGCTCAACGTCTTTGAGGATACAGTG-AGTAGGA-TGAGTCTTCAAATC-
1 AAAACAACGAAGCCAAGCTCAACGTCCCTGAGGATACAGTGAAGT-GGAGTGAGACTTCAAATCT
* * * *
98151 CTATTTTCCTGGTGAGGTACAGAGAAGTAGGTCAAAATAATGTGTTGAATC
65 C-ATCTTCCTGGTGAGGTACAGAGAAGTGGGTC-AAACAATGTGTTGAATA
* * * *
98202 AAAACAACGAATCCAAGCTCAACGTCTCTGAGGATACAATGAAGTGGAGTGAAACTTCAAATCTC
1 AAAACAACGAAGCCAAGCTCAACGTCCCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
* *
98267 ATCTTCCTGATGAGGTACAGAGAAGTGGGTTAAACAA
66 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACAA
98304 CGAAGCATTC
Statistics
Matches: 379, Mismatches: 54, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
112 1 0.00
113 282 0.74
114 95 0.25
115 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (113 bp):
AAAACAACGAAGCCAAGCTCAACGTCCCTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACAATGTGTTGAATA
Found at i:98148 original size:226 final size:227
Alignment explanation
Indices: 97749--98302 Score: 758
Period size: 227 Copynumber: 2.4 Consensus size: 227
97739 GAAGCAGATT
** * *
97749 AAAACAACGAAGCCAAGCTTTACGTCCCTGAGGATACAGTGAAGTGGAGTAAGACTTCAAATCTC
1 AAAACAACGAAGCCAAGCTCAACGTCCTTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
* * * *
97814 ATCTTCCTAGTGAGGTACAGAGAAGTGGGTTAAACAGTGTATTGAATAAAAACAACGAAGCTAAG
66 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACAGTATATTAAATAAAAACAACGAAGCTAAG
* * *
97879 GTTAACGTCCCTGAAGATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCTTGGTGAGGTA
131 CTCAACGTCCCTGAAGATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTA
* *
97944 CAAATAAGTGGGTC-AAAGAATGTGTTGAATC
196 CAAAGAAGTAGGTCAAAAGAATGTGTTGAATC
* *
97975 AAAAAAACGAAGCCAAGCTCAACGTCCTTGAGGATACAGTGAAGAGGAGTGAGACTTCAAATCTC
1 AAAACAACGAAGCCAAGCTCAACGTCCTTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
* * *
98040 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAATACAGTATGTTAAATCAAAACAACGAAG-TCG
66 ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAA-ACAGTATATTAAATAAAAACAACGAAGCT-A
** * * * *
98104 AGCTCAACGTCTTTGAGGATACAGT-GAGTAGGA-TGAGTCTTCAAATCCTATTTTCCTGGTGAG
129 AGCTCAACGTCCCTGAAGATACAGTGGAGT-GGAGTGAGACTTCAAATCCCATCTTCCTGGTGAG
* *
98167 GTACAGAGAAGTAGGTCAAAATAATGTGTTGAATC
193 GTACAAAGAAGTAGGTCAAAAGAATGTGTTGAATC
* * *
98202 AAAACAACGAATCCAAGCTCAACGT-CTCTGAGGATACAATGAAGTGGAGTGAAACTTCAAATCT
1 AAAACAACGAAGCCAAGCTCAACGTCCT-TGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCT
* *
98266 CATCTTCCTGATGAGGTACAGAGAAGTGGGTTAAACA
65 CATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACA
98303 ACGAAGCATT
Statistics
Matches: 290, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
226 140 0.48
227 150 0.52
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (227 bp):
AAAACAACGAAGCCAAGCTCAACGTCCTTGAGGATACAGTGAAGTGGAGTGAGACTTCAAATCTC
ATCTTCCTGGTGAGGTACAGAGAAGTGGGTCAAACAGTATATTAAATAAAAACAACGAAGCTAAG
CTCAACGTCCCTGAAGATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTGAGGTA
CAAAGAAGTAGGTCAAAAGAATGTGTTGAATC
Found at i:98468 original size:122 final size:122
Alignment explanation
Indices: 98248--98579 Score: 350
Period size: 123 Copynumber: 2.7 Consensus size: 122
98238 CAATGAAGTG
* * * * * * *
98248 GAGTGAAACTTCAAATCTCATCTTCCTGATGAGGTACAGAGAAGTGGGTTAAACAACGAAGC-AT
1 GAGTAAAACTTCAAACCTCATCTTTCTGATGAGATACAGAGAAGTAGGTCAAACAACAAAGCGA-
* * * ** *
98312 TCATCTTCTTGACGAGATATAGAGAAGTGGACCAAAATAAT-GAG-GAAAAGCTCAAATGT
65 TCATCTTCCTGATGAGATACAGAGAAGTAAACCAAAACAATGGAGTG--AAGCTC-AATGT
* * * * *
98371 GAGTAAAACTTCAAACCTTATCTTTTTGATGAGATACAGATAAGT-GGTCAGACAACAAAACGAT
1 GAGTAAAACTTCAAACCTCATCTTTCTGATGAGATACAGAGAAGTAGGTCAAACAACAAAGCGAT
* *
98435 CATCTTCCTGATGAGATACAGAGAAGTAAACCAAAACAATGGAGTGAATCTCCATGT
66 CATCTTCCTGATGAGATACAGAGAAGTAAACCAAAACAATGGAGTGAAGCTCAATGT
* * *
98492 GAGTAAAACTTCAAACCCCATCTTTCTAATGAGATACAAAGAAGTAGGTCAAAGCAACAAAGCTG
1 GAGTAAAACTTCAAACCTCATCTTTCTGATGAGATACAGAGAAGTAGGTCAAA-CAACAAAGC-G
* *
98557 -TCATCTGCCTGATAAGATACAGA
64 ATCATCTTCCTGATGAGATACAGA
98580 TAAATAGATC
Statistics
Matches: 174, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
121 43 0.25
122 58 0.33
123 71 0.41
124 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (122 bp):
GAGTAAAACTTCAAACCTCATCTTTCTGATGAGATACAGAGAAGTAGGTCAAACAACAAAGCGAT
CATCTTCCTGATGAGATACAGAGAAGTAAACCAAAACAATGGAGTGAAGCTCAATGT
Found at i:100607 original size:3 final size:3
Alignment explanation
Indices: 100599--100634 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
100589 CTCTGTGATG
100599 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
100635 ACAAAACCCT
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:106577 original size:3 final size:3
Alignment explanation
Indices: 106569--106607 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
106559 TTTCAAAAAA
*
106569 TAT TAT TAT TAT T-T AATT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
106608 GTGCATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.91
4 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:107870 original size:6 final size:7
Alignment explanation
Indices: 107831--107926 Score: 54
Period size: 7 Copynumber: 13.9 Consensus size: 7
107821 ATCTTAGACA
*
107831 TTAAATC
1 TTAAACC
*
107838 TTGAACC
1 TTAAACC
107845 TTAAACC
1 TTAAACC
*
107852 GT-AACC
1 TTAAACC
107858 TTGAAACC
1 TT-AAACC
107866 -TAAACC
1 TTAAACC
*
107872 TTAAACA
1 TTAAACC
*
107879 TTAAACT
1 TTAAACC
*
107886 TTAAATCA
1 TTAAA-CC
* *
107894 TGAACCC
1 TTAAACC
*
107901 TAAAACC
1 TTAAACC
*
107908 -TAAATC
1 TTAAACC
107914 TTAAACC
1 TTAAACC
*
107921 CTAAAC
1 TTAAAC
107927 TCTAAACATT
Statistics
Matches: 67, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
6 14 0.21
7 45 0.67
8 8 0.12
ACGTcount: A:0.44, C:0.25, G:0.04, T:0.27
Consensus pattern (7 bp):
TTAAACC
Found at i:107904 original size:21 final size:21
Alignment explanation
Indices: 107880--107932 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
107870 CCTTAAACAT
* *
107880 TAAACTTTAAATCATGAACCC
1 TAAACTCTAAATCATAAACCC
*
107901 TAAAAC-CTAAATCTTAAACCC
1 T-AAACTCTAAATCATAAACCC
107922 TAAACTCTAAA
1 TAAACTCTAAA
107933 CATTAGACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.47, C:0.25, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAACTCTAAATCATAAACCC
Found at i:107942 original size:21 final size:21
Alignment explanation
Indices: 107880--107942 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
107870 CCTTAAACAT
* *
107880 TAAACTTTAAATCATGAACCC
1 TAAACTCTAAATCATTAACCC
107901 TAAAAC-CTAAATC-TTAAACCC
1 T-AAACTCTAAATCATT-AACCC
107922 TAAACTCTAAA-CATTAGACCC
1 TAAACTCTAAATCATTA-ACCC
107943 AAGACCCTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
20 7 0.20
21 24 0.69
22 4 0.11
ACGTcount: A:0.44, C:0.27, G:0.03, T:0.25
Consensus pattern (21 bp):
TAAACTCTAAATCATTAACCC
Found at i:108099 original size:14 final size:14
Alignment explanation
Indices: 108082--108123 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
108072 GTCCAAATTC
108082 TAAGGTTTAGGGTT
1 TAAGGTTTAGGGTT
*
108096 TAAGGTTTAAGGTT
1 TAAGGTTTAGGGTT
* *
108110 TAATGTCTAGGGTT
1 TAAGGTTTAGGGTT
108124 CAGGTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.31, T:0.43
Consensus pattern (14 bp):
TAAGGTTTAGGGTT
Found at i:108780 original size:20 final size:20
Alignment explanation
Indices: 108757--108794 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108747 TTTTAAATTT
* *
108757 TAAAAGTTATTAAAAAATCA
1 TAAAAATTATAAAAAAATCA
108777 TAAAAATTATAAAAAAAT
1 TAAAAATTATAAAAAAAT
108795 TTATAAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
TAAAAATTATAAAAAAATCA
Found at i:108792 original size:21 final size:21
Alignment explanation
Indices: 108768--108811 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
108758 AAAAGTTATT
108768 AAAAAATCATAAAAATTATAA
1 AAAAAATCATAAAAATTATAA
* * * *
108789 AAAAATTTATAAACATTTTAA
1 AAAAAATCATAAAAATTATAA
108810 AA
1 AA
108812 TTTTAAAATA
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:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAATCATAAAAATTATAA
Found at i:108824 original size:18 final size:19
Alignment explanation
Indices: 108789--108826 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
108779 AAAATTATAA
108789 AAAAATTTATAAACATTTT
1 AAAAATTTATAAACATTTT
* *
108808 AAAATTTTA-AAATATTTT
1 AAAAATTTATAAACATTTT
108826 A
1 A
108827 TTAAAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAAATTTATAAACATTTT
Found at i:109504 original size:19 final size:20
Alignment explanation
Indices: 109460--109513 Score: 83
Period size: 19 Copynumber: 2.7 Consensus size: 20
109450 TCTCTCACAA
109460 CAAAAATTACAAAATAATTTT
1 CAAAAATT-CAAAATAATTTT
*
109481 CAAAAATTCAAATTAATTTT
1 CAAAAATTCAAAATAATTTT
109501 -AAAAATTCAAAAT
1 CAAAAATTCAAAAT
109514 TTATATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.39
20 11 0.35
21 8 0.26
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (20 bp):
CAAAAATTCAAAATAATTTT
Found at i:109514 original size:20 final size:21
Alignment explanation
Indices: 109460--109514 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
109450 TCTCTCACAA
109460 CAAAAATTACAAAA-TAATTTT
1 CAAAAATT-CAAAATTAATTTT
109481 CAAAAATTC-AAATTAATTTT
1 CAAAAATTCAAAATTAATTTT
109501 -AAAAATTCAAAATT
1 CAAAAATTCAAAATT
109515 TATATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.34
20 13 0.41
21 8 0.25
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (21 bp):
CAAAAATTCAAAATTAATTTT
Found at i:110289 original size:21 final size:19
Alignment explanation
Indices: 110265--110304 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
110255 AATTTCATAA
110265 TAAATAATACATTATAAAAAT
1 TAAATAA-A-ATTATAAAAAT
*
110286 TAAATAAATTTATAAAAAT
1 TAAATAAAATTATAAAAAT
110305 AATACATCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAATAAAATTATAAAAAT
Found at i:110762 original size:19 final size:19
Alignment explanation
Indices: 110725--110762 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
110715 TATTATTGAC
*
110725 TATTAATTTAAAACCAATT
1 TATTAATTTAAAACAAATT
110744 TATTCAATTTAAAA-AAATT
1 TATT-AATTTAAAACAAATT
110763 AAAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
TATTAATTTAAAACAAATT
Found at i:110870 original size:32 final size:31
Alignment explanation
Indices: 110815--110875 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
110805 ATAGGTAATT
**
110815 AATTATTTTATTTTATATGTTTATAATTTTC
1 AATTATTTTATTTTATAAATTTATAATTTTC
*
110846 AATTATTTTAATTTTATAAATTTATTATTT
1 AATTATTTT-ATTTTATAAATTTATAATTT
110876 GTTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (31 bp):
AATTATTTTATTTTATAAATTTATAATTTTC
Found at i:111420 original size:7 final size:7
Alignment explanation
Indices: 111408--111433 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
111398 CCCAAATTTA
111408 AATTCTT
1 AATTCTT
111415 AATTCTT
1 AATTCTT
111422 AATTCTT
1 AATTCTT
111429 AATTC
1 AATTC
111434 AAAACGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTCTT
Found at i:112648 original size:43 final size:43
Alignment explanation
Indices: 112601--112726 Score: 139
Period size: 43 Copynumber: 2.9 Consensus size: 43
112591 ATTTTTAGTG
*
112601 ACGCTTTTCTCACAAACACTGCTATAGAACATGATCTTTAACA
1 ACGCTTTTCTCACAAACACTGTTATAGAACATGATCTTTAACA
** * * *
112644 ACGCTTTT-TCCACAAACGTTGTTATAGAACATGGT-TTTCAGCG
1 ACGCTTTTCT-CACAAACACTGTTATAGAACATGATCTTT-AACA
* * *
112687 ACGCTTTTCCCATAAACACCGTTATAGAACATGATCTTTA
1 ACGCTTTTCTCACAAACACTGTTATAGAACATGATCTTTA
112727 GCGGCGTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
42 4 0.06
43 60 0.90
44 3 0.04
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (43 bp):
ACGCTTTTCTCACAAACACTGTTATAGAACATGATCTTTAACA
Found at i:113158 original size:66 final size:66
Alignment explanation
Indices: 113035--113159 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
113025 CTGTAACTGC
* **
113035 AGTTCATCATACTTTCTTTGAGACTCTGCTTCCTTCGCTACTACCTTGGCTTCAAGTTGTAGTTG
1 AGTTCATCATACTTTCTTTAAGACTCTGCTTCCTTCGCTACTACCTCCGCTTCAAGTTGTAGTTG
113100 A
66 A
* * * * * *
113101 AGTTCATCATATTTTCTTTAAGCCTCTG-TTTCTCTCGCTGCTGCCTCCGCTTTAAGTTG
1 AGTTCATCATACTTTCTTTAAGACTCTGCTTCCT-TCGCTACTACCTCCGCTTCAAGTTG
113160 AGCAATTTGC
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 4 0.08
66 45 0.92
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (66 bp):
AGTTCATCATACTTTCTTTAAGACTCTGCTTCCTTCGCTACTACCTCCGCTTCAAGTTGTAGTTG
A
Found at i:119154 original size:40 final size:39
Alignment explanation
Indices: 119068--119155 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 39
119058 GGGTTGTTTT
119068 TAATAATTAAATAATTAAATATTTGGGTTTTAACAATTAA
1 TAATAATTAAATAATTAAATATTTGGGTTTTAACAA-TAA
*
119108 -ATATAATTAAATAATTAAATATTGTGTTGTTTCTAA-AA-AA
1 TA-ATAATTAAATAATTAAATATT-TG-GGTTT-TAACAATAA
119148 TAATAATT
1 TAATAATT
119156 TTTAAAATCA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
39 1 0.02
40 29 0.69
41 3 0.07
42 6 0.14
43 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (39 bp):
TAATAATTAAATAATTAAATATTTGGGTTTTAACAATAA
Found at i:120168 original size:89 final size:89
Alignment explanation
Indices: 120045--120236 Score: 366
Period size: 89 Copynumber: 2.2 Consensus size: 89
120035 AAGTGGAAGC
120045 TTTTATGTCGACTTTACTAACTAATAGTCAGTATTATCATTAATACTGCTTGACAGACATTTTAG
1 TTTTATGTCGACTTTACTAACTAATAGTCAGTATTATCATTAATACTGCTTGACAGACATTTTAG
120110 GTATAGAACAATGCTTGACAGACA
66 GTATAGAACAATGCTTGACAGACA
* *
120134 TTTTATGTCGACTTTACTAACTAGTAGTCGGTATTATCATTAATACTGCTTGACAGACATTTTAG
1 TTTTATGTCGACTTTACTAACTAATAGTCAGTATTATCATTAATACTGCTTGACAGACATTTTAG
120199 GTATAGAACAATGCTTGACAGACA
66 GTATAGAACAATGCTTGACAGACA
120223 TTTTATGTCGACTT
1 TTTTATGTCGACTT
120237 AGGTGTTAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 101 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (89 bp):
TTTTATGTCGACTTTACTAACTAATAGTCAGTATTATCATTAATACTGCTTGACAGACATTTTAG
GTATAGAACAATGCTTGACAGACA
Found at i:121434 original size:21 final size:21
Alignment explanation
Indices: 121410--121449 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121400 CGATCTAAGG
121410 AAAAATAAAAGAAACAAAATT
1 AAAAATAAAAGAAACAAAATT
* *
121431 AAAATTAAAAGAAATAAAA
1 AAAAATAAAAGAAACAAAA
121450 AATAGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAATAAAAGAAACAAAATT
Found at i:122275 original size:19 final size:19
Alignment explanation
Indices: 122251--122293 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
122241 AAACATAAAT
122251 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
122270 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
122289 TAAAT
1 TAAAT
122294 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:123801 original size:42 final size:42
Alignment explanation
Indices: 123702--123843 Score: 180
Period size: 42 Copynumber: 3.4 Consensus size: 42
123692 GTTTATGGGA
* *
123702 AAACGCGGCTATTGCT-TA-ACCTTTAGCGGCGTTTTCCTCAT
1 AAACGCCGCTATTGCTCTATACCTTTTGCGGCGTTTT-CTCAT
* * * *
123743 AAACGTCACTAATGCTCTTTACCTTTTGCGGCGTTTTCTCAT
1 AAACGCCGCTATTGCTCTATACCTTTTGCGGCGTTTTCTCAT
* *
123785 AAATGCCGCTATTGCTCTATACCTTTTGCGGCGTTTTTTCCAT
1 AAACGCCGCTATTGCTCTATACCTTTTGCGGCGTTTTCT-CAT
123828 AAACGCCGCTATTGCT
1 AAACGCCGCTATTGCT
123844 TTATCTCTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
41 12 0.14
42 39 0.46
43 34 0.40
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (42 bp):
AAACGCCGCTATTGCTCTATACCTTTTGCGGCGTTTTCTCAT
Found at i:125016 original size:42 final size:40
Alignment explanation
Indices: 124885--125019 Score: 171
Period size: 41 Copynumber: 3.3 Consensus size: 40
124875 TTTTTTGGGA
* *
124885 AAACGCCACTATTGCTCTTACCTTTTGCGGTCTTTTCTCAT
1 AAACGCCGCTAATGCTCTTACCTTTTGCGGT-TTTTCTCAT
* * *
124926 AAAAGTCGCTAATGCTCTTACCTTTTGCGGCTTTTTGTCAT
1 AAACGCCGCTAATGCTCTTACCTTTTGCGG-TTTTTCTCAT
* *
124967 AAACGCCGCTAATGCTCTTACCTTTTACTGTGTTTTTCCCAT
1 AAACGCCGCTAATGCTCTTACCTTTTGC-G-GTTTTTCTCAT
125009 AAACGCCGCTA
1 AAACGCCGCTA
125020 TTGTTTTACT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
41 59 0.73
42 21 0.26
43 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (40 bp):
AAACGCCGCTAATGCTCTTACCTTTTGCGGTTTTTCTCAT
Found at i:125053 original size:82 final size:82
Alignment explanation
Indices: 124884--125059 Score: 187
Period size: 82 Copynumber: 2.1 Consensus size: 82
124874 CTTTTTTGGG
* * * * *
124884 AAAACGCCACTATTGCTCTTACCTTTTGCGGTCTTTTCTCATAAAAGTCGCTAATGCTCTTACCT
1 AAAACGCCGCTAATGCTCTTACCTTTTACGGTCTTTTCCCATAAAAGCCGCTAATGCTCTTACCT
* *
124949 TTTGCGGCTTTTTGTCA
66 TTTGCGGCTTTATGTAA
* * * *
124966 TAAACGCCGCTAATGCTCTTACCTTTTACTGTGT-TTTTCCCATAAACGCCGCTATTG-TTTTAC
1 AAAACGCCGCTAATGCTCTTACCTTTTAC-G-GTCTTTTCCCATAAAAGCCGCTAATGCTCTTAC
* *
125029 TTTTTGCTGCGTTTATG-AA
64 CTTTTGCGGC-TTTATGTAA
125048 AAAACGCCGCTA
1 AAAACGCCGCTA
125060 TTACTTTACT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
82 50 0.65
83 25 0.32
84 2 0.03
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (82 bp):
AAAACGCCGCTAATGCTCTTACCTTTTACGGTCTTTTCCCATAAAAGCCGCTAATGCTCTTACCT
TTTGCGGCTTTATGTAA
Found at i:130622 original size:121 final size:121
Alignment explanation
Indices: 130408--130651 Score: 479
Period size: 121 Copynumber: 2.0 Consensus size: 121
130398 ACAGCATGTC
130408 CACGGAAAGTTAAGCTACACGCATTAGAGGACAGGCCACTATTGCTAGTTCTATTGAGGTCCCAA
1 CACGGAAAGTTAAGCTACACGCATTAGAGGACAGGCCACTATTGCTAGTTCTATTGAGGTCCCAA
130473 AGTTTTAATGTGTTCAGTGGAAGCAGTAACTGCAGTTTCTGAGTCCAGGAATTTCA
66 AGTTTTAATGTGTTCAGTGGAAGCAGTAACTGCAGTTTCTGAGTCCAGGAATTTCA
*
130529 CACGGAAGGTTAAGCTACACGCATTAGAGGACAGGCCACTATTGCTAGTTCTATTGAGGTCCCAA
1 CACGGAAAGTTAAGCTACACGCATTAGAGGACAGGCCACTATTGCTAGTTCTATTGAGGTCCCAA
130594 AGTTTTAATGTGTTCAGTGGAAGCAGTAACTGCAGTTTCTGAGTCCAGGAATTTCA
66 AGTTTTAATGTGTTCAGTGGAAGCAGTAACTGCAGTTTCTGAGTCCAGGAATTTCA
130650 CA
1 CA
130652 TAGTTCACAG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (121 bp):
CACGGAAAGTTAAGCTACACGCATTAGAGGACAGGCCACTATTGCTAGTTCTATTGAGGTCCCAA
AGTTTTAATGTGTTCAGTGGAAGCAGTAACTGCAGTTTCTGAGTCCAGGAATTTCA
Found at i:133518 original size:23 final size:23
Alignment explanation
Indices: 133475--133518 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
133465 CATGGTTATG
**
133475 TAATGCAATATTTTCGGAAAACA
1 TAATGCAATATTTTCAAAAAACA
133498 TAATGCAA-ATTTTTCAAAAAA
1 TAATGCAATA-TTTTCAAAAAA
133519 TTTCCTACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (23 bp):
TAATGCAATATTTTCAAAAAACA
Found at i:142036 original size:23 final size:23
Alignment explanation
Indices: 142010--142055 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
142000 AAAAGTCAAA
142010 TGGCAGCTGATCTGAAGCAAATG
1 TGGCAGCTGATCTGAAGCAAATG
*
142033 TGGCGGCTGATCTGAAGCAAATG
1 TGGCAGCTGATCTGAAGCAAATG
142056 GTTGAGGACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (23 bp):
TGGCAGCTGATCTGAAGCAAATG
Found at i:142717 original size:37 final size:37
Alignment explanation
Indices: 142667--142737 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
142657 GAGCAAATGA
142667 AACATCAGATAGAATAAGAATCTACATGGCAAGAAAG
1 AACATCAGATAGAATAAGAATCTACATGGCAAGAAAG
*
142704 AACATCAGATAGAATAAGAATCTACATTGCAAGA
1 AACATCAGATAGAATAAGAATCTACATGGCAAGA
142738 GAGAGTTGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (37 bp):
AACATCAGATAGAATAAGAATCTACATGGCAAGAAAG
Found at i:147794 original size:16 final size:17
Alignment explanation
Indices: 147775--147860 Score: 97
Period size: 17 Copynumber: 5.2 Consensus size: 17
147765 TTGTCTGGAC
* *
147775 TTATTGGAAA-TTGAAT
1 TTATTTGAAATTTAAAT
*
147791 TTATTT-AAATTTAAGT
1 TTATTTGAAATTTAAAT
*
147807 TTATTTTAAATTTAAAT
1 TTATTTGAAATTTAAAT
147824 TTATTTGAAATTTAAAT
1 TTATTTGAAATTTAAAT
*
147841 TTATTAT-AAAATTAAAT
1 TTATT-TGAAATTTAAAT
147858 TTA
1 TTA
147861 GAAAGTCCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
15 3 0.05
16 15 0.25
17 42 0.69
18 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTATTTGAAATTTAAAT
Found at i:147816 original size:17 final size:17
Alignment explanation
Indices: 147788--147860 Score: 103
Period size: 17 Copynumber: 4.4 Consensus size: 17
147778 TTGGAAATTG
147788 AATTTA-TTTAAATTTA
1 AATTTATTTTAAATTTA
*
147804 AGTTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
147821 AATTTATTTGAAATTTA
1 AATTTATTTTAAATTTA
* *
147838 AATTTATTATAAAATTA
1 AATTTATTTTAAATTTA
147855 AATTTA
1 AATTTA
147861 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
16 5 0.10
17 45 0.90
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:147836 original size:7 final size:6
Alignment explanation
Indices: 147793--147860 Score: 56
Period size: 6 Copynumber: 11.8 Consensus size: 6
147783 AATTGAATTT
* *
147793 ATTTAA ATTTAA GTTT-A TTTTAA ATTTAA ATTT-- ATTTGAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA
*
147839 ATTT-- ATTATAA AATTAA ATTTA
1 ATTTAA ATT-TAA ATTTAA ATTTA
147861 GAAAGTCCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
4 7 0.14
5 5 0.10
6 32 0.64
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:147892 original size:12 final size:13
Alignment explanation
Indices: 147862--147917 Score: 62
Period size: 13 Copynumber: 4.2 Consensus size: 13
147852 TTAAATTTAG
147862 AAAGTCCAATTAA-
1 AAAGTCCAA-TAAC
147875 AAAGTCCAA-AAC
1 AAAGTCCAATAAC
147887 AAAGTCCAATAAC
1 AAAGTCCAATAAC
*
147900 AAATGGCCCAATAAC
1 AAA--GTCCAATAAC
147915 AAA
1 AAA
147918 TGGCCCAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
11 2 0.05
12 9 0.24
13 15 0.39
15 12 0.32
ACGTcount: A:0.55, C:0.21, G:0.09, T:0.14
Consensus pattern (13 bp):
AAAGTCCAATAAC
Found at i:147912 original size:15 final size:15
Alignment explanation
Indices: 147892--147947 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
147882 AAAACAAAGT
147892 CCAATAACAAATGGC
1 CCAATAACAAATGGC
147907 CCAATAACAAATGGC
1 CCAATAACAAATGGC
* *
147922 CCAATTACAGATGGC
1 CCAATAACAAATGGC
*
147937 CCAATTACAAA
1 CCAATAACAAA
147948 CTACCCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.45, C:0.27, G:0.12, T:0.16
Consensus pattern (15 bp):
CCAATAACAAATGGC
Found at i:147955 original size:30 final size:30
Alignment explanation
Indices: 147892--147955 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
147882 AAAACAAAGT
*
147892 CCAATAACAAATGGCCCAATAACAAATGGC
1 CCAATAACAAATGGCCCAATAACAAATGAC
* * *
147922 CCAATTACAGATGGCCCAATTACAAACT-AC
1 CCAATAACAAATGGCCCAATAACAAA-TGAC
147952 CCAA
1 CCAA
147956 AAGCCCAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.16
Consensus pattern (30 bp):
CCAATAACAAATGGCCCAATAACAAATGAC
Done.