Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 163 of 297
Found at i:55040057 original size:25 final size:25
Alignment explanation
Indices: 55040018--55040118 Score: 184
Period size: 25 Copynumber: 4.0 Consensus size: 25
55040008 CAGCAAGACG
55040018 TAGGGTCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
* *
55040043 TACGATCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
55040068 TAGGGTCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
55040093 TAGGGTCGACTTGGATTAGTTTGGA
1 TAGGGTCGACTTGGATTAGTTTGGA
55040118 T
1 T
55040119 CATCGGAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 72 1.00
ACGTcount: A:0.21, C:0.09, G:0.34, T:0.37
Consensus pattern (25 bp):
TAGGGTCGACTTGGATTAGTTTGGA
Found at i:55040831 original size:25 final size:25
Alignment explanation
Indices: 55040785--55040832 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
55040775 TTATAATATG
* * * *
55040785 AAAATGACTATTTTGCCTCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55040810 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55040833 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55040893 original size:20 final size:19
Alignment explanation
Indices: 55040860--55040934 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
55040850 ATACGTGGGA
55040860 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
*
55040877 ATATGATATGCACATGACATG
1 -TATGATATGCACATGA-TTG
*
55040898 TATAATATGCACATGATATG
1 TATGATATGCACATGAT-TG
55040918 TATGGA-ATGCACATGAT
1 TAT-GATATGCACATGAT
55040935 GTAATCATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.17
20 37 0.77
21 3 0.06
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:55041026 original size:26 final size:26
Alignment explanation
Indices: 55040984--55041119 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
55040974 GAGGAAGTGC
55040984 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
55041009 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
55041035 AAAAGGGTTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
55041061 AAAAGGGCTTATGCCCCATTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
55041087 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
55041110 AAAAGAGGCT
1 AAAAG-GGCT
55041120 AGGCCTTCAG
Statistics
Matches: 99, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 15 0.15
26 72 0.73
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:55048464 original size:64 final size:64
Alignment explanation
Indices: 55048368--55048494 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
55048358 TTAATAATTG
55048368 GGAGAGGAAGCATGGCTTTGCATGTCAAATTACCCATAAAATACATGGTGGCCGGCCAAGGAGA
1 GGAGAGGAAGCATGGCTTTGCATGTCAAATTACCCATAAAATACATGGTGGCCGGCCAAGGAGA
55048432 GGAGAGGAAGCATGGCTTTGCATGTCAAATTACCCATAAAATACATGGTGGCCGGCCAAGGAG
1 GGAGAGGAAGCATGGCTTTGCATGTCAAATTACCCATAAAATACATGGTGGCCGGCCAAGGAG
55048495 TGATGATGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (64 bp):
GGAGAGGAAGCATGGCTTTGCATGTCAAATTACCCATAAAATACATGGTGGCCGGCCAAGGAGA
Found at i:55049922 original size:28 final size:29
Alignment explanation
Indices: 55049857--55049955 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
55049847 CATGAGATTG
* *
55049857 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGGTTC-GATTATATA
55049886 GCACTAAGTGTGCGAGGTT-GATTATATA
1 GCACTAAGTGTGCGAGGTTCGATTATATA
* *
55049914 GCACTAAGTGTGTGA-GTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGGTTCGATTATAT-A
55049942 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55049956 GGCTTATTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
27 4 0.06
28 40 0.65
29 14 0.23
30 4 0.06
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGGTTCGATTATATA
Found at i:55056938 original size:143 final size:143
Alignment explanation
Indices: 55056680--55056969 Score: 553
Period size: 143 Copynumber: 2.0 Consensus size: 143
55056670 AAATTTTGAA
*
55056680 GAAGTTCGGCCATTGCTTGTATCTAGGATGAGTGTTTGATGTTGTGGCATGAAAATGAGGGAGTT
1 GAAGTTCGGCCATTGCTTGTATCTAGGAGGAGTGTTTGATGTTGTGGCATGAAAATGAGGGAGTT
55056745 TGAATGCTTAATAAGGAGGGAAGAAGGAGTGTTCATGTTTTCTTTCTTTTGCAATTGTCGTAACT
66 TGAATGCTTAATAAGGAGGGAAGAAGGAGTGTTCATGTTTTCTTTCTTTTGCAATTGTCGTAACT
55056810 AGAGGAAGAAGAG
131 AGAGGAAGAAGAG
55056823 GAAGTTCGGCCATTGCTTGTATCTAGGAGGAGTGTTTGATGTTGTGGCATGAAAATGAGGGAGTT
1 GAAGTTCGGCCATTGCTTGTATCTAGGAGGAGTGTTTGATGTTGTGGCATGAAAATGAGGGAGTT
*
55056888 TGAGTGCTTAATAAGGAGGGAAGAAGGAGTGTTCATGTTTTCTTTCTTTTGCAATTGTCGTAACT
66 TGAATGCTTAATAAGGAGGGAAGAAGGAGTGTTCATGTTTTCTTTCTTTTGCAATTGTCGTAACT
*
55056953 AGAGGAAGAAGGG
131 AGAGGAAGAAGAG
55056966 GAAG
1 GAAG
55056970 CAAGATTCGG
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 144 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (143 bp):
GAAGTTCGGCCATTGCTTGTATCTAGGAGGAGTGTTTGATGTTGTGGCATGAAAATGAGGGAGTT
TGAATGCTTAATAAGGAGGGAAGAAGGAGTGTTCATGTTTTCTTTCTTTTGCAATTGTCGTAACT
AGAGGAAGAAGAG
Found at i:55070706 original size:23 final size:23
Alignment explanation
Indices: 55070680--55070724 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55070670 TGGGTATGTG
*
55070680 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
55070703 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
55070725 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:55076183 original size:65 final size:65
Alignment explanation
Indices: 55076077--55076209 Score: 169
Period size: 65 Copynumber: 2.0 Consensus size: 65
55076067 TTATGAGTCT
* * *
55076077 AATGAGAAAGGATTTAAAAGGCAATTAGACTCAAAATTTATTAT-AGCTGGACGGAAAGGGCATG
1 AATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAAGTTATT-TGAGCTGGACGGAAAGGGCATG
55076141 A
65 A
* * * * * *
55076142 AATGAGAAAGGATTTAAAAGGAAATTTGACCCAAACGTTATTTGGGTTGGACGGCAAGGGTATGA
1 AATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAAGTTATTTGAGCTGGACGGAAAGGGCATGA
55076207 AAT
1 AAT
55076210 CAGCAGAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 1 0.02
65 57 0.98
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (65 bp):
AATGAGAAAGGATTTAAAAGGAAATTAGACCCAAAAGTTATTTGAGCTGGACGGAAAGGGCATGA
Found at i:55079033 original size:3 final size:3
Alignment explanation
Indices: 55079025--55079055 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
55079015 AAAATGCGCT
*
55079025 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
55079056 CTGATCCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:55079869 original size:17 final size:19
Alignment explanation
Indices: 55079849--55079886 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
55079839 CAGGGGAAGG
55079849 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
55079866 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
55079885 AA
1 AA
55079887 TTAAGGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:55091347 original size:2 final size:2
Alignment explanation
Indices: 55091340--55091378 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
55091330 AAACCCCAAA
55091340 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
55091379 AAAGGAAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:55094875 original size:7 final size:7
Alignment explanation
Indices: 55094863--55094889 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55094853 AGTCACCTTC
55094863 AACAAAT
1 AACAAAT
55094870 AACAAAT
1 AACAAAT
55094877 AACAAAT
1 AACAAAT
55094884 AACAAA
1 AACAAA
55094890 AAAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.11
Consensus pattern (7 bp):
AACAAAT
Found at i:55096709 original size:6 final size:6
Alignment explanation
Indices: 55096694--55096723 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
55096684 GCTGAAATTT
55096694 AAAAGAA AAAAGA AAAAGA AAAAGA AAAAG
1 AAAAG-A AAAAGA AAAAGA AAAAGA AAAAG
55096724 GAAAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:55096715 original size:12 final size:13
Alignment explanation
Indices: 55096694--55096735 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
55096684 GCTGAAATTT
55096694 AAAAGAAAAAAGA
1 AAAAGAAAAAAGA
55096707 AAAAG-AAAAAGA
1 AAAAGAAAAAAGA
55096719 AAAAGGAAAGAAAGA
1 AAAA-GAAA-AAAGA
55096734 AA
1 AA
55096736 GAAATTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 11 0.42
13 6 0.23
14 2 0.08
15 7 0.27
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGA
Found at i:55096766 original size:41 final size:41
Alignment explanation
Indices: 55096719--55096809 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
55096709 AAGAAAAAGA
55096719 AAAAGGA-AAGAAAGAAAGAAATTATTAGACTGACAACATTT
1 AAAAGGATAAGAAA-AAAGAAATTATTAGACTGACAACATTT
**** *
55096760 AAAAGGATATTTCACAAGAAATTATTAGACTGACAACATTT
1 AAAAGGATAAGAAAAAAGAAATTATTAGACTGACAACATTT
55096801 AAAAGGATA
1 AAAAGGATA
55096810 TTTCACACAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 42 0.95
42 2 0.05
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAAGGATAAGAAAAAAGAAATTATTAGACTGACAACATTT
Found at i:55096810 original size:41 final size:41
Alignment explanation
Indices: 55096734--55096816 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
55096724 GAAAGAAAGA
55096734 AAGAAATTATTAGACTGACAACATTTAAAAGGATATTTCAC
1 AAGAAATTATTAGACTGACAACATTTAAAAGGATATTTCAC
55096775 AAGAAATTATTAGACTGACAACATTTAAAAGGATATTTCAC
1 AAGAAATTATTAGACTGACAACATTTAAAAGGATATTTCAC
55096816 A
1 A
55096817 CATACATTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (41 bp):
AAGAAATTATTAGACTGACAACATTTAAAAGGATATTTCAC
Found at i:55096837 original size:41 final size:41
Alignment explanation
Indices: 55096737--55096829 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
55096727 AGAAAGAAAG
* ** *
55096737 AAATTATTAGACTGACAACATTTAAAAGGATATTTCACAAG
1 AAATCATTAGACACACAACATTTAAAAGGATATTTCACAAC
* **
55096778 AAATTATTAGACTGACAACATTTAAAAGGATATTTCAC-AC
1 AAATCATTAGACACACAACATTTAAAAGGATATTTCACAAC
*
55096818 ATA-CATTAGACA
1 AAATCATTAGACA
55096830 AACACAACCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.15
40 3 0.06
41 38 0.79
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (41 bp):
AAATCATTAGACACACAACATTTAAAAGGATATTTCACAAC
Found at i:55097088 original size:22 final size:22
Alignment explanation
Indices: 55097060--55097102 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
55097050 TGTAAGGCAC
55097060 TAGCTCCCCAGCATATTTTTCA
1 TAGCTCCCCAGCATATTTTTCA
55097082 TAGCTCCCCAGCATATTTTTC
1 TAGCTCCCCAGCATATTTTTC
55097103 TAACAGGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.33, G:0.09, T:0.37
Consensus pattern (22 bp):
TAGCTCCCCAGCATATTTTTCA
Found at i:55101406 original size:17 final size:17
Alignment explanation
Indices: 55101384--55101416 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55101374 TTTATAATTT
55101384 TTATAATTTATTAAAAA
1 TTATAATTTATTAAAAA
55101401 TTATAATTTATTAAAA
1 TTATAATTTATTAAAA
55101417 TTAGATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTATAATTTATTAAAAA
Found at i:55102607 original size:3 final size:3
Alignment explanation
Indices: 55102601--55102637 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
55102591 TAACGGTTGG
55102601 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
55102638 TTACAAGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:55103281 original size:19 final size:20
Alignment explanation
Indices: 55103254--55103291 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55103244 TTGTAATGAT
*
55103254 TATATTTTA-ATATTTAAAA
1 TATAGTTTATATATTTAAAA
55103273 TATAGTTTATATATTTAAA
1 TATAGTTTATATATTTAAA
55103292 TTAAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TATAGTTTATATATTTAAAA
Found at i:55106786 original size:12 final size:12
Alignment explanation
Indices: 55106769--55106793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55106759 TTATATTTAT
55106769 ATATTAAATTAA
1 ATATTAAATTAA
55106781 ATATTAAATTAA
1 ATATTAAATTAA
55106793 A
1 A
55106794 ATTTATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATTAAATTAA
Found at i:55117321 original size:15 final size:12
Alignment explanation
Indices: 55117279--55117312 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
55117269 AAGACTGGGT
55117279 GGTGCAGCCGGC
1 GGTGCAGCCGGC
55117291 GGTGCAGCCGGC
1 GGTGCAGCCGGC
55117303 GGTGCAGCCG
1 GGTGCAGCCG
55117313 CTTGCGGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.50, T:0.09
Consensus pattern (12 bp):
GGTGCAGCCGGC
Found at i:55129673 original size:21 final size:21
Alignment explanation
Indices: 55129647--55129687 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55129637 AGACGAGCAA
* *
55129647 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
55129668 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
55129688 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:55131626 original size:16 final size:16
Alignment explanation
Indices: 55131593--55131626 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
55131583 GGAGACTGTT
* *
55131593 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
55131609 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
55131625 AA
1 AA
55131627 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:55134453 original size:21 final size:21
Alignment explanation
Indices: 55134427--55134467 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55134417 AGACGAGCAA
* *
55134427 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
55134448 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
55134468 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:55139248 original size:21 final size:21
Alignment explanation
Indices: 55139222--55139262 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
55139212 AGACGAGCAA
* *
55139222 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
55139243 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
55139263 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:55142323 original size:21 final size:20
Alignment explanation
Indices: 55142285--55142323 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
55142275 TTAAATTTTA
55142285 AATTTTAAAAAATGAATAAT
1 AATTTTAAAAAATGAATAAT
55142305 AATTCTTATAAAAAT-AATA
1 AATT-TTA-AAAAATGAATA
55142324 CTTTTATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AATTTTAAAAAATGAATAAT
Found at i:55142335 original size:17 final size:18
Alignment explanation
Indices: 55142299--55142338 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
55142289 TTAAAAAATG
55142299 AATAATAATTCTTATAAA
1 AATAATAATTCTTATAAA
* *
55142317 AATAATACTT-TTATTAA
1 AATAATAATTCTTATAAA
55142334 AATAA
1 AATAA
55142339 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATAATTCTTATAAA
Found at i:55142360 original size:22 final size:23
Alignment explanation
Indices: 55142332--55142378 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
55142322 TACTTTTATT
*
55142332 AAAATAAAT-AAAAAAATTACTA
1 AAAATAAATCAAAAAAATGACTA
* *
55142354 AAAATAAGTCATAAAAATGACTA
1 AAAATAAATCAAAAAAATGACTA
55142377 AA
1 AA
55142379 TATTATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.68, C:0.06, G:0.04, T:0.21
Consensus pattern (23 bp):
AAAATAAATCAAAAAAATGACTA
Found at i:55143697 original size:21 final size:21
Alignment explanation
Indices: 55143673--55143712 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
55143663 AAATATTTTT
*
55143673 TATTTTTTTTAAAATTTTAAA
1 TATTTATTTTAAAATTTTAAA
55143694 TATTTATTTTAAAATTTTA
1 TATTTATTTTAAAATTTTA
55143713 CGAATCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTATTTTAAAATTTTAAA
Found at i:55158162 original size:11 final size:11
Alignment explanation
Indices: 55158146--55158172 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
55158136 TTTTAAATTA
55158146 TATTTTTTTAT
1 TATTTTTTTAT
55158157 TATTTTTTTAT
1 TATTTTTTTAT
55158168 TATTT
1 TATTT
55158173 CATGTAATAT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TATTTTTTTAT
Found at i:55161310 original size:46 final size:46
Alignment explanation
Indices: 55161143--55161316 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
55161133 TAACCCGCCC
* * * *
55161143 ATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCC
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTC-GGACATTCGCATCT
*
55161189 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATTCCTAGTT-ACATCT
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCT
* *
55161239 CA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCT
1 -ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCT
*
55161282 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
55161317 TGCTCAATCA
Statistics
Matches: 107, Mismatches: 9, Indels: 24
0.76 0.06 0.17
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
45 2 0.02
46 58 0.54
47 27 0.25
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
ATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCT
Found at i:55161335 original size:46 final size:44
Alignment explanation
Indices: 55161149--55161335 Score: 123
Period size: 46 Copynumber: 4.0 Consensus size: 44
55161139 GCCCATAAGC
* * * *
55161149 GAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGC-ATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GG-ATTC-CAAT-CATCTAGT
* * *
55161195 GAACTCAGACTCAACTCAACGAGTTCGGATTCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATTCC-A-AT-CATCT-AGT
* *
55161242 AAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-ATCTAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATTC-CAATC-ATCTAGT
*
55161288 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAATCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATTC-CAATCAT-CTAGT
55161334 GA
1 GA
55161336 CATGTCACTT
Statistics
Matches: 113, Mismatches: 15, Indels: 26
0.73 0.10 0.17
Matches are distributed among these distances:
43 1 0.01
44 9 0.08
45 6 0.05
46 62 0.55
47 29 0.26
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATTCCAATCATCTAGT
Found at i:55162687 original size:43 final size:43
Alignment explanation
Indices: 55162640--55162743 Score: 131
Period size: 43 Copynumber: 2.4 Consensus size: 43
55162630 AGACAGAATC
* * * *
55162640 TAGCCTGGACTGGTATTTCTGATCT-TATGTT-GAAATCGGGATT
1 TAGCCTGGACTGGTAATCCTAAT-TATATGTTGGAAAT-GAGATT
*
55162683 TAGCCTGGACTGGTAATCCTAATTATATGTTGGAGATGAGATT
1 TAGCCTGGACTGGTAATCCTAATTATATGTTGGAAATGAGATT
55162726 TAGCCTGGACTGGTAATC
1 TAGCCTGGACTGGTAATC
55162744 TTGATCTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 49 0.91
44 4 0.07
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
TAGCCTGGACTGGTAATCCTAATTATATGTTGGAAATGAGATT
Found at i:55175501 original size:46 final size:46
Alignment explanation
Indices: 55175444--55175593 Score: 149
Period size: 46 Copynumber: 3.1 Consensus size: 46
55175434 ACACACCGTA
* *
55175444 GCCATAGCCCAGCCATGATCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACACTGAT
* * * * *
55175490 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCTATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
*
55175543 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCTATGGTCTTACACGA-ATCACATATCACACTGAT
55175589 GCCAT
1 GCCAT
55175594 GGTCCAACCA
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
46 30 0.36
47 7 0.08
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.07
52 5 0.06
53 28 0.34
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (46 bp):
GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACACTGAT
Found at i:55176741 original size:23 final size:22
Alignment explanation
Indices: 55176674--55176759 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
55176664 CCTGATCAGT
*
55176674 ATACAACACATAA-GTGCCTGA
1 ATACGACACATAAGGTGCCTGA
*
55176695 A-ACGACACATGAGGTGCCTG-
1 ATACGACACATAAGGTGCCTGA
*
55176715 ATACGACACACAAGGTGCCTGAA
1 ATACGACACATAAGGTGCCTG-A
*
55176738 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAGGTGCCTGA
55176760 TCAATATAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 10 0.18
21 25 0.45
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.16
Consensus pattern (22 bp):
ATACGACACATAAGGTGCCTGA
Found at i:55176756 original size:44 final size:41
Alignment explanation
Indices: 55176674--55176760 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
55176664 CCTGATCAGT
* * *
55176674 ATACAACACATAAGTGCCTGAAACGACACATGAGGTGCCTG
1 ATACAACACACAAGTGCCTGAAACGACACATAAAGTGCCTG
*
55176715 ATACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTG
1 ATACAACACACAA-GTGCCTG-AA-ACGACACATAAAGTGCCTG
55176759 AT
1 AT
55176761 CAATATAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 11 0.28
42 7 0.18
43 2 0.05
44 19 0.49
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (41 bp):
ATACAACACACAAGTGCCTGAAACGACACATAAAGTGCCTG
Found at i:55176976 original size:23 final size:24
Alignment explanation
Indices: 55176950--55177044 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
55176940 AAATGTCCAA
55176950 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
55176973 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
55177001 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
55177030 CCAAAACACACCAGA
1 CCAAAACACACCAGA
55177045 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:55177046 original size:29 final size:28
Alignment explanation
Indices: 55176964--55177047 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
55176954 AACACACCAG
* *
55176964 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
55176992 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
55177020 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
55177048 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:55181299 original size:21 final size:18
Alignment explanation
Indices: 55181275--55181313 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
55181265 TATATATTTT
55181275 TATATTTATCATTATTTTAAA
1 TATATTT-T-ATT-TTTTAAA
55181296 TATATTTTATTTTTTAAA
1 TATATTTTATTTTTTAAA
55181314 AAACATCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 1 0.06
21 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTTATTTTTTAAA
Found at i:55198048 original size:43 final size:43
Alignment explanation
Indices: 55197893--55198161 Score: 200
Period size: 43 Copynumber: 6.3 Consensus size: 43
55197883 AAGACTAAAG
* * **** * *
55197893 CGCCGCTAAAGACCCAGATCTTTAGCGGCGTTTTTGGGAGAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
* ** * * * * * *
55197936 CGCCGCTAAAGATCAGGGTCTTTAGAGGCGTTTTTCTCTCAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
* * * *
55197979 CGCC-ATGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAA
1 CGCCGCT-AAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
*
55198022 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
* * * **
55198065 TGCCGCTAAAGACCTTGATCTTTAGTGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
* * * ** *
55198108 CACTGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
*
55198151 CGCCACTAAAG
1 CGCCGCTAAAG
55198162 GCCAACACCT
Statistics
Matches: 178, Mismatches: 44, Indels: 8
0.77 0.19 0.03
Matches are distributed among these distances:
42 3 0.02
43 173 0.97
44 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCCCCACAAA
Found at i:55199150 original size:30 final size:30
Alignment explanation
Indices: 55199085--55199150 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
55199075 TAATAACGAA
55199085 AATATAAATATATATAATAATTATTAAACT
1 AATATAAATATATATAATAATTATTAAACT
* * *
55199115 TATATAATTA-ATATAAT-ATTTTTATAACAT
1 AATATAAATATATATAATAATTATTA-AAC-T
55199145 AATATA
1 AATATA
55199151 TTCGGGCGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 6 0.20
29 10 0.33
30 14 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
AATATAAATATATATAATAATTATTAAACT
Found at i:55200550 original size:132 final size:132
Alignment explanation
Indices: 55200221--55200618 Score: 546
Period size: 132 Copynumber: 3.0 Consensus size: 132
55200211 TTGCCTCGCC
* * * * * ***
55200221 TTAGAAAACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAACGTGAAATCAAAAC
1 TTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* * * * *
55200286 CCAGCACGATAGGGCACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGCTTTAAAGAGT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGT
55200351 TT
131 TT
* * *
55200353 TTA-AAGACGTGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* * * *
55200417 CCAGCACGATAGGGCACGACTCCCCAAATTGCCAAACATCGAACATTTCCTTCATTTTAAAGAGT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGT
55200482 TT
131 TT
* * *
55200484 TTAGAAAACATAAGTGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* * * *
55200549 CCAGCACGATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAAT
66 CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGT
55200614 TT
131 TT
55200616 TTA
1 TTA
55200619 AACGAATGAT
Statistics
Matches: 232, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 112 0.48
132 120 0.52
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
TTAGAAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGT
TT
Found at i:55209397 original size:20 final size:19
Alignment explanation
Indices: 55209372--55209413 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
55209362 TAGTCATGAA
*
55209372 TATAATTGTGTGTATATTAT
1 TATAATTGCGTGTATA-TAT
55209392 TATAATTGCGTGTATATAT
1 TATAATTGCGTGTATATAT
55209411 TAT
1 TAT
55209414 GTGTGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (19 bp):
TATAATTGCGTGTATATAT
Found at i:55209409 original size:22 final size:20
Alignment explanation
Indices: 55209372--55209413 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
55209362 TAGTCATGAA
*
55209372 TATAATTGTGTGTATATTAT
1 TATAATTGTGTATATATTAT
55209392 TATAATTGCGTGTATATATTAT
1 TATAATT--GTGTATATATTAT
55209414 GTGTGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.52
Consensus pattern (20 bp):
TATAATTGTGTATATATTAT
Found at i:55214091 original size:26 final size:26
Alignment explanation
Indices: 55214029--55214109 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
55214019 ATGAAATTCC
55214029 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55214055 -TCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55214080 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55214106 ATCA
1 ATCA
55214110 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
25 25 0.47
26 28 0.53
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55215979 original size:5 final size:5
Alignment explanation
Indices: 55215965--55216010 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
55215955 TATATTAAAT
*
55215965 TATTA TTATTA TATTA TAGTA TATTA TATTATA TATTA TATTA TAT
1 TATTA -TATTA TATTA TATTA TATTA TA-T-TA TATTA TATTA TAT
55216011 AAATAAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 25 0.69
6 7 0.19
7 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:55215989 original size:10 final size:9
Alignment explanation
Indices: 55215952--55216011 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 9
55215942 GTGTTAAAAA
55215952 ATATATATT
1 ATATATATT
*
55215961 AAAT-TATT
1 ATATATATT
55215969 ATTATTATATT
1 A-TA-TATATT
55215980 ATAGTATATT
1 ATA-TATATT
55215990 ATAT-TA-T
1 ATATATATT
55215997 ATATTATATT
1 ATA-TATATT
55216007 ATATA
1 ATATA
55216012 AATAAGTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
7 4 0.10
8 8 0.19
9 9 0.21
10 16 0.38
11 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
ATATATATT
Found at i:55216001 original size:12 final size:12
Alignment explanation
Indices: 55215953--55216011 Score: 64
Period size: 12 Copynumber: 4.5 Consensus size: 12
55215943 TGTTAAAAAA
*
55215953 TATATATTAAAT
1 TATATATTATAT
55215965 TATTATTATTATATT
1 TA-TA-TATTATA-T
55215980 ATAGTATATTATAT
1 -TA-TATATTATAT
55215994 TATATATTATAT
1 TATATATTATAT
55216006 TATATA
1 TATATA
55216012 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 18 0.44
13 4 0.10
14 7 0.17
15 8 0.20
16 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
TATATATTATAT
Found at i:55217349 original size:18 final size:19
Alignment explanation
Indices: 55217328--55217366 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
55217318 ATATAGATAT
55217328 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
55217346 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
55217365 AT
1 AT
55217367 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:55217716 original size:39 final size:40
Alignment explanation
Indices: 55217606--55217716 Score: 100
Period size: 38 Copynumber: 2.8 Consensus size: 40
55217596 GACCTCGAGT
* * **
55217606 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGATAGAGC
** ** * *
55217647 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
*
55217685 CGATGAGACACTGGGTGTCAAATATTGCTTCG
1 CGATGAGACACTGGGTGTCAAATATTACTTCG
55217717 AACTATCTGA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.34
39 18 0.34
40 1 0.02
41 16 0.30
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGATAGAGC
Found at i:55217884 original size:18 final size:19
Alignment explanation
Indices: 55217863--55217903 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
55217853 AATGAAATGA
55217863 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
55217881 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
55217900 GAAA
1 GAAA
55217904 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:55218871 original size:41 final size:41
Alignment explanation
Indices: 55218790--55219039 Score: 299
Period size: 41 Copynumber: 6.1 Consensus size: 41
55218780 ACAAAAATTA
* * *** *
55218790 TAAAAAACGGAGCAATAGCGGCG-TTTTACCAAAAATGCCGC
1 TAAAAACCAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGC
* *
55218831 TAAAAA-CAGAGCAATAGCGGCGTTTTTTGTTAAAACGCCGC
1 TAAAAACCAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGC
* * *
55218872 TAAAAA-CAGAGCACTAGCGGCGCTTTTGGTAAAACGTCGT
1 TAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
55218912 TAAAAACCAGAGCATTAGCTGCGCTTTTGGTAAAACGCCGC
1 TAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* *
55218953 TAAAAACCAGAGCATTAGCGGTGCTTTTGGTAAAACGCCGC
1 TAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
* * *
55218994 TAAAAACCAGAGCAGTAGCGGCGCTTTCGATAAAACGCCGC
1 TAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
55219035 TAAAA
1 TAAAA
55219040 GTCATATAAT
Statistics
Matches: 186, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 35 0.19
41 147 0.79
42 4 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (41 bp):
TAAAAACCAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:55219819 original size:21 final size:19
Alignment explanation
Indices: 55219794--55219833 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
55219784 CCGGCCTGAT
55219794 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
55219815 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
55219834 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:55219874 original size:8 final size:7
Alignment explanation
Indices: 55219857--55219889 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
55219847 AAAGTATTTT
*
55219857 AAAATTA
1 AAAAATA
55219864 AAAAATA
1 AAAAATA
55219871 AAAAATA
1 AAAAATA
55219878 AAAAATA
1 AAAAATA
55219885 AAAAA
1 AAAAA
55219890 CTTAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:55221781 original size:138 final size:138
Alignment explanation
Indices: 55221553--55221804 Score: 452
Period size: 138 Copynumber: 1.8 Consensus size: 138
55221543 GTGGAGTCCC
*
55221553 TGTTTTGAATTTTAGAATCCTATGTAATCTCTTTAAAAATTGGCATTAAATTGTTTTTAGGTTTT
1 TGTTTTGAATTTTAGAATCCTATGTAATCTCCTTAAAAATTGGCATTAAATTGTTTTTAGGTTTT
55221618 ATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGATTTAACGTCTGGATGCTTTTA
66 ATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGATTTAACGTCTGGATGCTTTTA
55221683 GGAGTGAT
131 GGAGTGAT
*
55221691 TGTTTTGAATTTTAGAA-CCATATGTAATTTCCTTAAAAATTGGCATTAAATTGTTTTTAGGTTT
1 TGTTTTGAATTTTAGAATCC-TATGTAATCTCCTTAAAAATTGGCATTAAATTGTTTTTAGGTTT
* *
55221755 TATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGATTTAA
65 TATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGATTTAA
55221805 AATTTTAAAA
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
137 2 0.02
138 107 0.98
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (138 bp):
TGTTTTGAATTTTAGAATCCTATGTAATCTCCTTAAAAATTGGCATTAAATTGTTTTTAGGTTTT
ATAATAACATTTCTCTTTGTGATGTTATTATGCAACTTATTTGATTTAACGTCTGGATGCTTTTA
GGAGTGAT
Found at i:55222911 original size:43 final size:43
Alignment explanation
Indices: 55222846--55222986 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
55222836 AAATTTCATT
* *
55222846 ACCTTTAGCGGCGTTTGCGGGAAAAGCGCCGCTAAAGGTAAAG
1 ACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
*
55222889 ATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
1 ACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
* * * *
55222932 ACCTCTAACGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCATG
1 ACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
55222975 ACCTTTAGCGGC
1 ACCTTTAGCGGC
55222987 ATTTTTTTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (43 bp):
ACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAG
Found at i:55224526 original size:18 final size:18
Alignment explanation
Indices: 55224485--55224529 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
55224475 ATCCAACCCG
*
55224485 ATAAAAAAATGAGAGAAT
1 ATAAAAATATGAGAGAAT
55224503 ACTAAAAATATGAG-GAAGT
1 A-TAAAAATATGAGAGAA-T
55224522 ATAAAAAT
1 ATAAAAAT
55224530 TTTTGAGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.62, C:0.02, G:0.16, T:0.20
Consensus pattern (18 bp):
ATAAAAATATGAGAGAAT
Found at i:55229468 original size:9 final size:9
Alignment explanation
Indices: 55229429--55229478 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
55229419 ATAAGTATAA
55229429 AATTAACCG
1 AATTAACCG
*
55229438 ACTT-ACCTG
1 AATTAACC-G
* *
55229447 AATTACCCA
1 AATTAACCG
55229456 AATTAACCG
1 AATTAACCG
55229465 AATTAACCG
1 AATTAACCG
55229474 AATTA
1 AATTA
55229479 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
8 3 0.09
9 28 0.85
10 2 0.06
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:55229519 original size:13 final size:13
Alignment explanation
Indices: 55229497--55229548 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
55229487 AAATTATATG
*
55229497 TTTTTTATTTTTA
1 TTTTTAATTTTTA
55229510 TTTTTAATTTTTA
1 TTTTTAATTTTTA
*
55229523 TTTATTAA--ATTA
1 TTT-TTAATTTTTA
*
55229535 TTTGTAATTTTTA
1 TTTTTAATTTTTA
55229548 T
1 T
55229549 GATTGGGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.09
12 6 0.19
13 19 0.59
14 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTAATTTTTA
Found at i:55231116 original size:56 final size:56
Alignment explanation
Indices: 55231030--55231141 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
55231020 TGGTATCGGC
55231030 ATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCCCGTTGAACCTTA
1 ATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCCCGTTGAACCTTA
*
55231086 ATTCCGTCGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCCCGTTGAACCTTA
1 ATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCCCGTTGAACCTTA
55231142 GGAATAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (56 bp):
ATTCCGTAGAAGATGGTTGAGACACATGATTGGGAAAAAGGTCCCGTTGAACCTTA
Found at i:55231247 original size:46 final size:46
Alignment explanation
Indices: 55231190--55231364 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
55231180 TTTGGGCATC
*
55231190 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTT
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGAT
* * * * *
55231236 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCAT
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG-AT
* * **
55231282 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGCC
1 C-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGAT
*
55231329 CGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
55231365 CGGGTTACAT
Statistics
Matches: 105, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 61 0.58
47 26 0.25
48 4 0.04
50 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGAT
Found at i:55231343 original size:93 final size:93
Alignment explanation
Indices: 55231184--55231355 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
55231174 AGAATATTTG
* **
55231184 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGCCCGAACTCGTTGAG
55231249 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
55231277 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGCCCGAGCTTGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGCCCGAACTCGTTGAG
55231342 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55231356 ACTTATGGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55233858 original size:43 final size:43
Alignment explanation
Indices: 55233783--55233868 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
55233773 GCGCACGGTT
* *** *
55233783 TGTTTCTGTGCGCAGGCTAGGTGTTGTTGAAGTTCGGTTCAGC
1 TGTTTCCGTGCGCAGGCTAGGTAAAGTAGAAGTTCGGTTCAGC
*
55233826 TGTTTCCGTGCGCAGGCTAGGTAAAGTAGAAGTTTGGTTCAGC
1 TGTTTCCGTGCGCAGGCTAGGTAAAGTAGAAGTTCGGTTCAGC
55233869 ATCCGAGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (43 bp):
TGTTTCCGTGCGCAGGCTAGGTAAAGTAGAAGTTCGGTTCAGC
Found at i:55236102 original size:15 final size:14
Alignment explanation
Indices: 55236034--55236162 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
55236024 TTATTGCTAT
55236034 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
55236048 TATTTATATTTAT-
1 TATTTTTATTTATC
*
55236061 T-TTGTTATTCTAATAC
1 TATTTTTATT-T-AT-C
*
55236077 TATTATTATTTATC
1 TATTTTTATTTATC
55236091 TAATTTTTATTTATC
1 T-ATTTTTATTTATC
* *
55236106 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
*
55236121 TATTATTATATT-TC
1 TATTTTTAT-TTATC
*
55236135 TATTTATTATATT-TT
1 TATTT-TTAT-TTATC
*
55236150 TATTTCTATTTAT
1 TATTTTTATTTAT
55236163 ATACTAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 32 0.35
15 37 0.40
16 4 0.04
17 7 0.08
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:55236115 original size:29 final size:28
Alignment explanation
Indices: 55236034--55236141 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 28
55236024 TTATTGCTAT
*
55236034 TATTTTTATGTTTCTATTTATATTTAT-
1 TATTTTTATATTTCTATTTATATTTATC
* * * *
55236061 TTTGTTATTCTAATACTA-TTATTATTTATC
1 TAT-TT-TTATATTTCTATTTA-TATTTATC
*
55236091 TAATTTTTAT-TTATCTATTTATATTTCTAC
1 T-ATTTTTATATT-TCTATTTATATTTAT-C
*
55236121 TATTATTATATTTCTATTTAT
1 TATTTTTATATTTCTATTTAT
55236142 TATATTTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 42 0.69
30 10 0.16
31 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTCTATTTATATTTATC
Found at i:55236147 original size:23 final size:23
Alignment explanation
Indices: 55236121--55236187 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
55236111 ATATTTCTAC
55236121 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
55236144 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
55236166 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
55236187 T
1 T
55236188 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:55236198 original size:52 final size:54
Alignment explanation
Indices: 55236077--55236198 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
55236067 ATTCTAATAC
* * *
55236077 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
55236129 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
55236178 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
55236199 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:55240161 original size:16 final size:16
Alignment explanation
Indices: 55240140--55240172 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55240130 TCTGAAAGTG
55240140 GGGACAAAAGAGTTGC
1 GGGACAAAAGAGTTGC
55240156 GGGACAAAAGAGTTGC
1 GGGACAAAAGAGTTGC
55240172 G
1 G
55240173 ATGACTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.39, T:0.12
Consensus pattern (16 bp):
GGGACAAAAGAGTTGC
Found at i:55250169 original size:6 final size:6
Alignment explanation
Indices: 55250152--55250208 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
55250142 GATAGTACAG
* * * *
55250152 TAATGA TAATAA TGATAA TAATAA TAATAA TATTAA TAGTAA TAAT-A
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
55250199 TAAGTAA TAA
1 TAA-TAA TAA
55250209 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
5 4 0.09
6 35 0.81
7 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (6 bp):
TAATAA
Found at i:55250175 original size:15 final size:15
Alignment explanation
Indices: 55250152--55250208 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
55250142 GATAGTACAG
* *
55250152 TAATGATAATAATGA
1 TAATAATAATAATAA
55250167 TAATAATAATAATAA
1 TAATAATAATAATAA
* *
55250182 TATTAATAGTAATAA
1 TAATAATAATAATAA
55250197 T-ATAAGTAATAA
1 TAATAA-TAATAA
55250209 ATATTTTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
14 3 0.09
15 32 0.91
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:55250183 original size:9 final size:9
Alignment explanation
Indices: 55250152--55250208 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
55250142 GATAGTACAG
*
55250152 TAATGATAA
1 TAATAATAA
*
55250161 TAATGATAA
1 TAATAATAA
55250170 TAATAATAA
1 TAATAATAA
*
55250179 TAATATTAA
1 TAATAATAA
*
55250188 TAGTAATAA
1 TAATAATAA
55250197 T-ATAAGTAA
1 TAATAA-TAA
55250206 TAA
1 TAA
55250209 ATATTTTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
8 3 0.07
9 37 0.90
10 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (9 bp):
TAATAATAA
Found at i:55250555 original size:28 final size:28
Alignment explanation
Indices: 55250508--55250575 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 28
55250498 AAAAATTTAG
*
55250508 TAATAATAATAACATATT-AAATAGTAA
1 TAATAATAATAACATATTAAAATAATAA
55250535 -AA-AATAATAACAGTGATTTAAAATAATAA
1 TAATAATAATAACA-T-A-TTAAAATAATAA
55250564 TAATAATAATAA
1 TAATAATAATAA
55250576 TAATAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 10 0.29
26 3 0.09
27 1 0.03
28 2 0.06
29 8 0.24
30 2 0.06
31 8 0.24
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (28 bp):
TAATAATAATAACATATTAAAATAATAA
Found at i:55250562 original size:3 final size:3
Alignment explanation
Indices: 55250556--55250695 Score: 110
Period size: 3 Copynumber: 46.3 Consensus size: 3
55250546 AGTGATTTAA
*
55250556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGA- AAT AGT GAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT -AAT
* ** * *
55250602 -AT AAAT AAT AGT GGT AA- AA- AAT AAT AAT AAT AGT AAT AAC AAT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
55250645 AAT GAT GAT GAAT -AT AAAT GAT AAT AAT AAT AAT AAT AAT AAT AGAT
1 AAT AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
55250692 AAT A
1 AAT A
55250696 TTAAATTTAC
Statistics
Matches: 113, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
2 9 0.08
3 92 0.81
4 12 0.11
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:55250595 original size:65 final size:65
Alignment explanation
Indices: 55250508--55250647 Score: 158
Period size: 65 Copynumber: 2.2 Consensus size: 65
55250498 AAAAATTTAG
* * **
55250508 TAATAATAATAACATATTAAATAGTAAAAA-ATAATAACAGTGATTTAAAATAATAATAATAATA
1 TAATAATAATAAAATATGAAATAGTAAAAATA-AATAACAGTGATAAAAAATAATAATAATAATA
55250572 A
65 A
* * * * *
55250573 TAATAATAATAATAATA-GAAATAGTGAATATAAATAATAGTGGTAAAAAATAATAATAATAGTA
1 TAATAATAATAA-AATATGAAATAGTAAAAATAAATAACAGTGATAAAAAATAATAATAATAATA
55250637 A
65 A
*
55250638 TAACAATAAT
1 TAATAATAAT
55250648 GATGATGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 59 0.94
66 4 0.06
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (65 bp):
TAATAATAATAAAATATGAAATAGTAAAAATAAATAACAGTGATAAAAAATAATAATAATAATAA
Found at i:55250848 original size:26 final size:28
Alignment explanation
Indices: 55250819--55250879 Score: 74
Period size: 25 Copynumber: 2.3 Consensus size: 28
55250809 AAAATGAACG
* * *
55250819 AATATAAAAATGCATGTA-AGT-TAAAA
1 AATATAAAAATGAATGTATAATAAAAAA
55250845 AATAT-AAAATGAATGTATAATAAAAAA
1 AATATAAAAATGAATGTATAATAAAAAA
55250872 AATATAAA
1 AATATAAA
55250880 TAAAACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 11 0.38
26 7 0.24
27 9 0.31
28 2 0.07
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (28 bp):
AATATAAAAATGAATGTATAATAAAAAA
Found at i:55265215 original size:76 final size:76
Alignment explanation
Indices: 55265129--55265434 Score: 576
Period size: 76 Copynumber: 4.0 Consensus size: 76
55265119 TTAATTGTGA
55265129 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
1 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
55265194 AGAAACTCGTG
66 AGAAACTCGTG
55265205 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
1 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
55265270 AGAAACTCGTG
66 AGAAACTCGTG
55265281 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
1 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
55265346 AGAAACTCGTG
66 AGAAACTCGTG
* * * *
55265357 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTATATTTTAAATTAAGATCCCGT
1 AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
55265422 AGAAACTCGTG
66 AGAAACTCGTG
55265433 AA
1 AA
55265435 AAAGGAAAAA
Statistics
Matches: 226, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 226 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (76 bp):
AATGAATTATAAGTGAAATATATGCTAATGAATGAATAATTTTAAATTTTAAATCAAAATCCTGT
AGAAACTCGTG
Found at i:55265760 original size:21 final size:21
Alignment explanation
Indices: 55265736--55265866 Score: 158
Period size: 21 Copynumber: 6.3 Consensus size: 21
55265726 GTGTTTTACT
55265736 TTCTGTTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
55265757 TTCTGTTTAGCTCTTACGAGC
1 TTCTGTTTAGCTCTTACGAGC
* **
55265778 TTTTGTTTAGCTCTTTTGAGC
1 TTCTGTTTAGCTCTTACGAGC
* * * *
55265799 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTTAGCTCTTACGAGC
* *
55265820 TTCTGTTTAGCTTTTACAAGC
1 TTCTGTTTAGCTCTTACGAGC
*
55265841 TTCTGTTCAGCT-TT-CGAGC
1 TTCTGTTTAGCTCTTACGAGC
55265860 TTCTGTT
1 TTCTGTT
55265867 GGCTCATGCC
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
19 11 0.12
20 2 0.02
21 81 0.86
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTACGAGC
Found at i:55269312 original size:4 final size:4
Alignment explanation
Indices: 55269303--55269333 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
55269293 TAAATTTGTA
55269303 TTAT TTAT TTAT TTAT TTAT TTATT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TT
55269334 TTCGGCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:55271200 original size:46 final size:46
Alignment explanation
Indices: 55271099--55271192 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 46
55271089 TGTAACCCGC
* * *
55271099 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATGCGCAA
* *
55271145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATGCGCAA
55271189 CCAT
1 CCAT
55271193 CCTAGTGACA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 9 0.21
45 2 0.05
46 32 0.74
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATGCGCAA
Found at i:55278705 original size:93 final size:93
Alignment explanation
Indices: 55278598--55278768 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
55278588 GCCCCTAAGT
* *
55278598 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55278663 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55278691 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55278756 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55278769 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55278765 original size:46 final size:46
Alignment explanation
Indices: 55278593--55278765 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
55278583 AACCCGCCCC
* * *
55278593 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
55278639 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
55278687 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
55278732 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55278766 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:55279222 original size:30 final size:30
Alignment explanation
Indices: 55279188--55279247 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
55279178 ATTTAATACG
55279188 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
55279218 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
55279248 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:55284804 original size:38 final size:38
Alignment explanation
Indices: 55284733--55284921 Score: 191
Period size: 38 Copynumber: 4.9 Consensus size: 38
55284723 ATTTGATGTG
* * *
55284733 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTTGTGCTGGAATTA
*
55284773 TATCCGGGTTAAATCCCACAGGCTTTGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGG-AATTA
* * *
55284811 TATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGAATTA
* * * *
55284849 TATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGAATTA
* * * *
55284887 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGG
1 TATCCG-GGTTAAA-TCCCGCAGGCTTTGTGCTGG
55284922 TGTTATGTTT
Statistics
Matches: 129, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 90 0.70
39 13 0.10
40 25 0.19
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGAATTA
Found at i:55284842 original size:76 final size:78
Alignment explanation
Indices: 55284762--55284921 Score: 234
Period size: 76 Copynumber: 2.1 Consensus size: 78
55284752 GCAGGCTATA
* *
55284762 TGCTGGAATTATATCCGGGTTAAATCCCACAGGCTTTGTGCTGGTAATATATCCG-GGTTAAA-T
1 TGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGAGGTTAAAGT
55284825 CCCGTAGGCTTCG
66 CCCGTAGGCTTCG
* * * * * *
55284838 TGCTGGTATTATATCTGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTGAGTTTAAAGT
1 TGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGAGGTTAAAGT
55284903 CCCGTAGGCTTCG
66 CCCGTAGGCTTCG
55284916 TGCTGG
1 TGCTGG
55284922 TGTTATGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
76 48 0.65
77 6 0.08
78 20 0.27
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (78 bp):
TGCTGGAATTATATCCGGGTTAAATCCCACAGGCCTAGTGCTGGTAATATATCCGAGGTTAAAGT
CCCGTAGGCTTCG
Found at i:55288111 original size:22 final size:21
Alignment explanation
Indices: 55288086--55288156 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 21
55288076 TATTATTAAT
55288086 TTTAAAATTTTTGAAATATATA
1 TTTAAAATTTTT-AAATATATA
55288108 TTTAAAATATTTTATTAATATATATA
1 TTT-AAA-A-TTT-TTAA-ATATATA
*
55288134 TTTTAAA-TTTTAAATATATA
1 TTTAAAATTTTTAAATATATA
55288154 TTT
1 TTT
55288157 TGAAATTACT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 10 0.23
21 4 0.09
22 5 0.12
23 3 0.07
24 2 0.05
25 7 0.16
26 12 0.28
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTAAAATTTTTAAATATATA
Found at i:55288127 original size:24 final size:21
Alignment explanation
Indices: 55288086--55288156 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
55288076 TATTATTAAT
*
55288086 TTTAAAATTTTTGAAATATATA
1 TTTAAAAATTTT-AAATATATA
55288108 TTTAAAATATTTTATTAATATATA
1 TTTAAAA-ATTTTA--AATATATA
**
55288132 TATTTTAAATTTTAAATATATA
1 T-TTAAAAATTTTAAATATATA
55288154 TTT
1 TTT
55288157 TGAAATTACT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
21 2 0.05
22 17 0.40
23 4 0.10
24 15 0.36
25 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTAAAAATTTTAAATATATA
Found at i:55288147 original size:34 final size:35
Alignment explanation
Indices: 55288108--55288221 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 35
55288098 GAAATATATA
55288108 TTTAAA-ATATTTTATTAATATATATATTTTAAAT
1 TTTAAATATATTTTATTAATATATATATTTTAAAT
*
55288142 TTTAAATATATATTT-TGAA-AT-TACT-TTTTAAAAT
1 TTTAAATATAT-TTTATTAATATATA-TATTTT-AAAT
* *
55288176 TTTAAATATTATTTTTTTAATATTTAAATATTTTAAACT
1 TTTAAATA-TATTTTATTAATA--TATATATTTTAAA-T
*
55288215 TTCAAAT
1 TTTAAAT
55288222 TTGTTATTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
33 6 0.09
34 24 0.38
35 13 0.20
36 4 0.06
38 5 0.08
39 12 0.19
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (35 bp):
TTTAAATATATTTTATTAATATATATATTTTAAAT
Found at i:55288152 original size:20 final size:22
Alignment explanation
Indices: 55288122--55288163 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
55288112 AAATATTTTA
55288122 TTAATATATATATTTT-AAATT
1 TTAATATATATATTTTGAAATT
55288143 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTGAAATT
55288164 ACTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAATATATATATTTTGAAATT
Found at i:55288191 original size:22 final size:21
Alignment explanation
Indices: 55288153--55288207 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
55288143 TTAAATATAT
*
55288153 ATTTTGAA-ATTACTTTTTAAA
1 ATTTTAAATATTACTTTTT-AA
* *
55288174 ATTTTAAATATTATTTTTTTA
1 ATTTTAAATATTACTTTTTAA
55288195 ATATTTAAATATT
1 AT-TTTAAATATT
55288208 TTAAACTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTACTTTTTAA
Found at i:55288618 original size:20 final size:19
Alignment explanation
Indices: 55288578--55288620 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
55288568 AATAAAAAAG
* *
55288578 ATTTGTTAAAAAAAGATTT
1 ATTTGTTAAAAAAAAAATT
55288597 ATTTGTTAAAAAATAAAATT
1 ATTTGTTAAAAAA-AAAATT
55288617 ATTT
1 ATTT
55288621 AAAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTTGTTAAAAAAAAAATT
Found at i:55288676 original size:20 final size:19
Alignment explanation
Indices: 55288622--55288676 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
55288612 AAATTATTTA
55288622 AAAATATATATATTAAAAAGT
1 AAAA-ATATATATT-AAAAGT
* *
55288643 AAAAATTTAAATTAAAAGTT
1 AAAAATATATATTAAAAG-T
*
55288663 AAAACTATATATTA
1 AAAAATATATATTA
55288677 TAAAATCACA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.18
20 19 0.68
21 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAATATATATTAAAAGT
Found at i:55288832 original size:2 final size:2
Alignment explanation
Indices: 55288821--55288854 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
55288811 TGAAATGTTT
*
55288821 TA TA -A TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55288855 TTTAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55288905 original size:21 final size:21
Alignment explanation
Indices: 55288872--55288932 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
55288862 TTTAAATATT
55288872 ATTTT-AA-ATTATTTTTAAA
1 ATTTTAAATATTATTTTTAAA
*
55288891 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTAAA
**
55288912 ACATTAAATATATATTTTTAA
1 ATTTTAAATAT-TATTTTTAA
55288933 TTTTTTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 20 0.57
22 8 0.23
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTAAA
Found at i:55288911 original size:22 final size:23
Alignment explanation
Indices: 55288872--55288930 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
55288862 TTTAAATATT
55288872 ATTTT-AA-ATTA-TTTTTAAA-
1 ATTTTAAATATTATTTTTTAAAC
55288891 ATTTTAAATATTATTTTTTAAAC
1 ATTTTAAATATTATTTTTTAAAC
55288914 A--TTAAATATATATTTTT
1 ATTTTAAATAT-TATTTTT
55288931 AATTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 12 0.34
22 15 0.43
23 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTAAATATTATTTTTTAAAC
Found at i:55289011 original size:5 final size:5
Alignment explanation
Indices: 55288973--55289023 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
55288963 TTTCTCTGAC
*
55288973 ATTTT -TTTT ATTTTT TTCTTT ATCTTT A-TTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT A-TTTT AT-TTT AT-TTT ATTTT ATTTT ATTTT ATTTT
55289019 ATTTT
1 ATTTT
55289024 CTTATTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 8 0.20
5 19 0.47
6 13 0.32
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:55289143 original size:34 final size:31
Alignment explanation
Indices: 55289075--55289173 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 31
55289065 TGTTTTATAA
*
55289075 TAAA-TATTTTTTAAGTTTTAAATATATATATT
1 TAAATTATTTTTTAAATTTTAAATAT-TAT-TT
55289107 TAAAATTATTTTTCTAAATTTTAAATATTACTTT
1 T-AAATTATTTTT-TAAATTTTAAATATTA-TTT
* * *
55289141 TAAATCATTGTTTAAAAATTTAAATATTATTT
1 TAAATTATT-TTTTAAATTTTAAATATTATTT
55289173 T
1 T
55289174 TTAAATATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
32 5 0.09
33 24 0.41
34 15 0.26
35 14 0.24
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (31 bp):
TAAATTATTTTTTAAATTTTAAATATTATTT
Found at i:55289308 original size:23 final size:24
Alignment explanation
Indices: 55289259--55289361 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 24
55289249 TTTTATAATA
55289259 TTTTAAATGTATATTTTAATT-TG--
1 TTTTAAAT-TAT-TTTTAATTATGAT
55289282 TTTTATAATT-TTTTTAATTATGAT
1 TTTTA-AATTATTTTTAATTATGAT
*
55289306 TTTTAAATTATTTTAAATTATGAT
1 TTTTAAATTATTTTTAATTATGAT
* * ** *
55289330 TTTGAAATAATTTAAAATATATTAT
1 TTTTAAATTATTTTTAAT-TATGAT
55289355 TTTTAAA
1 TTTTAAA
55289362 GATATGACAT
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
21 8 0.12
22 3 0.04
23 10 0.15
24 36 0.53
25 11 0.16
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (24 bp):
TTTTAAATTATTTTTAATTATGAT
Found at i:55289310 original size:13 final size:13
Alignment explanation
Indices: 55289292--55289332 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
55289282 TTTTATAATT
55289292 TTTTTAATTATGA
1 TTTTTAATTATGA
*
55289305 TTTTTAA--ATTA
1 TTTTTAATTATGA
*
55289316 TTTTAAATTATGA
1 TTTTTAATTATGA
55289329 TTTT
1 TTTT
55289333 GAAATAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 9 0.39
13 14 0.61
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
TTTTTAATTATGA
Found at i:55289319 original size:24 final size:24
Alignment explanation
Indices: 55289282--55289361 Score: 90
Period size: 24 Copynumber: 3.3 Consensus size: 24
55289272 TTTTAATTTG
*
55289282 TTTTATAATT-TTTTTAATTATGAT
1 TTTTA-AATTATTTTAAATTATGAT
55289306 TTTTAAATTATTTTAAATTATGAT
1 TTTTAAATTATTTTAAATTATGAT
* * * *
55289330 TTTGAAATAATTTAAAATATATTAT
1 TTTTAAATTATTTTAAAT-TATGAT
55289355 TTTTAAA
1 TTTTAAA
55289362 GATATGACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 4 0.08
24 33 0.69
25 11 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTAAATTATTTTAAATTATGAT
Found at i:55289414 original size:13 final size:13
Alignment explanation
Indices: 55289396--55289421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55289386 TTGTTTTATA
55289396 ATATTTTAAATTT
1 ATATTTTAAATTT
55289409 ATATTTTAAATTT
1 ATATTTTAAATTT
55289422 TTTTAAATTT
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTTAAATTT
Found at i:55289434 original size:30 final size:28
Alignment explanation
Indices: 55289389--55289476 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 28
55289379 TTATTATTTG
*
55289389 TTTTATAATATTTTAAATTTATATTTTAAA
1 TTTTTTAA-ATTTTAAATTTA-ATTTTAAA
*
55289419 TTTTTTTAAATTTTAAATATAATTTTTATAA
1 -TTTTTTAAATTTTAAATTTAA-TTTTA-AA
* *
55289450 ATTATTAAA-TTTAAATTTAATTTTAAA
1 TTTTTTAAATTTTAAATTTAATTTTAAA
55289477 GATATTCAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.04
28 5 0.10
29 11 0.22
30 23 0.46
31 9 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTTTTAAATTTTAAATTTAATTTTAAA
Found at i:55289442 original size:22 final size:23
Alignment explanation
Indices: 55289417--55289459 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
55289407 TTATATTTTA
*
55289417 AATTTTTTTAAATT-TTAAATAT
1 AATTTTTATAAATTATTAAATAT
55289439 AATTTTTATAAATTATTAAAT
1 AATTTTTATAAATTATTAAAT
55289460 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATTTTTATAAATTATTAAATAT
Found at i:55289468 original size:22 final size:22
Alignment explanation
Indices: 55289425--55289468 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
55289415 TAAATTTTTT
*
55289425 TAAATTTTAAATATAATTTTTA
1 TAAATTTTAAATATAATATTTA
*
55289447 TAAATTATTAAATTTAA-ATTTA
1 TAAATT-TTAAATATAATATTTA
55289469 ATTTTAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATTTTAAATATAATATTTA
Found at i:55293366 original size:30 final size:30
Alignment explanation
Indices: 55293331--55293437 Score: 115
Period size: 30 Copynumber: 3.6 Consensus size: 30
55293321 CGGTGGTTGC
* *
55293331 TCTGGGTGAAATGAACTCGAACCGCCTATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* *
55293361 TCTGGGTGATACGAACTTGAACTGCCTATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
* * * *
55293391 CCCGGGTGATATGAACTTGAACCGGCAATG
1 TCTGGGTGATATGAACTTGAACCGCCTATG
***
55293421 TCCAAGTGATATGAACT
1 TCTGGGTGATATGAACT
55293438 GCTCTGCGAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (30 bp):
TCTGGGTGATATGAACTTGAACCGCCTATG
Found at i:55295650 original size:71 final size:72
Alignment explanation
Indices: 55295575--55295719 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
55295565 TATATTTTAA
* * * * * *
55295575 AAAAATAAATTGAATATATTATAATTTTAATATTGGTTATACTTAACATTTTTTAATATATTTAA
1 AAAAATAAATTAAATATATTAAAATTTTAAAATTCGCTATACATAACATTTTTTAATATATTTAA
55295640 TTT-TTT
66 TTTCTTT
* *
55295646 AAAAATATATTAAATATATTAAAATTTTAAAATTCGCTATACATAACGTTTTTTAATATATTTAA
1 AAAAATAAATTAAATATATTAAAATTTTAAAATTCGCTATACATAACATTTTTTAATATATTTAA
55295711 TTTCTTT
66 TTTCTTT
55295718 AA
1 AA
55295720 GTTTTTAAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 60 0.92
72 5 0.08
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (72 bp):
AAAAATAAATTAAATATATTAAAATTTTAAAATTCGCTATACATAACATTTTTTAATATATTTAA
TTTCTTT
Found at i:55295667 original size:20 final size:20
Alignment explanation
Indices: 55295629--55295669 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
55295619 AACATTTTTT
* * *
55295629 AATATATTTAATTTTTTAAA
1 AATATATTAAATATATTAAA
55295649 AATATATTAAATATATTAAA
1 AATATATTAAATATATTAAA
55295669 A
1 A
55295670 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATTAAATATATTAAA
Found at i:55295836 original size:40 final size:41
Alignment explanation
Indices: 55295783--55295867 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 41
55295773 AAAAATATAT
*
55295783 ATTAACTACATAAATTTATGAATGTGTACTAAAATTAAAAA
1 ATTAACTACATAAATTTATAAATGTGTACTAAAATTAAAAA
* *
55295824 ATTAA-TATATAAATTTATAAATGTGTACTAAAATTTAAAA
1 ATTAACTACATAAATTTATAAATGTGTACTAAAATTAAAAA
55295864 ATTA
1 ATTA
55295868 TAACCAACAC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 36 0.88
41 5 0.12
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.38
Consensus pattern (41 bp):
ATTAACTACATAAATTTATAAATGTGTACTAAAATTAAAAA
Found at i:55295857 original size:20 final size:20
Alignment explanation
Indices: 55295803--55295865 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
55295793 TAAATTTATG
*
55295803 AATGTGTACTAAAATTAAAA
1 AATGTGTACTAAAATTTAAA
* *
55295823 AAT-TAATA-TATAAATTTATA
1 AATGT-GTACTA-AAATTTAAA
55295843 AATGTGTACTAAAATTTAAA
1 AATGTGTACTAAAATTTAAA
55295863 AAT
1 AAT
55295866 TATAACCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (20 bp):
AATGTGTACTAAAATTTAAA
Found at i:55296733 original size:13 final size:14
Alignment explanation
Indices: 55296694--55296732 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
55296684 ATCTTTAAAA
55296694 ATAATTTAAAAATC
1 ATAATTTAAAAATC
55296708 ATAATTTAAAAATC
1 ATAATTTAAAAATC
55296722 ATAATTTAAAA
1 ATAATTTAAAA
55296733 TATTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:55296878 original size:20 final size:21
Alignment explanation
Indices: 55296842--55296919 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 21
55296832 TTTAAAAAGT
*
55296842 AATTTCAAAATATATATTTAA
1 AATTTTAAAATATATATTTAA
55296863 AATTTTAAAAATATATATTATTAA
1 AATTTT-AAAATATATA-T-TTAA
* *
55296887 AATATTTTAAATATAT-TTCAA
1 AAT-TTTAAAATATATATTTAA
55296908 AATTTTTAAAAT
1 AA-TTTTAAAAT
55296920 TAATAATAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
21 17 0.35
22 12 0.25
23 1 0.02
24 15 0.31
25 3 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTTTAAAATATATATTTAA
Found at i:55296880 original size:26 final size:26
Alignment explanation
Indices: 55296848--55296902 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
55296838 AAGTAATTTC
55296848 AAAATATATA-T-TT-AAA-ATTTTA
1 AAAATATATATTATTAAAATATTTTA
55296870 AAAATATATATTATTAAAATATTTTA
1 AAAATATATATTATTAAAATATTTTA
*
55296896 AATATAT
1 AAAATAT
55296903 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 10 0.36
23 1 0.04
24 2 0.07
25 3 0.11
26 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AAAATATATATTATTAAAATATTTTA
Found at i:55296886 original size:24 final size:22
Alignment explanation
Indices: 55296843--55296919 Score: 77
Period size: 24 Copynumber: 3.4 Consensus size: 22
55296833 TTAAAAAGTA
55296843 ATTTCAAAATATATATTTAAAAT
1 ATTT-AAAATATATATTTAAAAT
55296866 -TTTAAAAATATATATTATTAAAAT
1 ATTT-AAAATATATA-T-TTAAAAT
* *
55296890 ATTTTAAATATAT-TTCAAAAT
1 ATTTAAAATATATATTTAAAAT
*
55296911 TTTTAAAAT
1 ATTTAAAAT
55296920 TAATAATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
21 13 0.28
22 14 0.30
23 1 0.02
24 15 0.33
25 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAAAATATATATTTAAAAT
Found at i:55296920 original size:9 final size:10
Alignment explanation
Indices: 55296877--55296919 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
55296867 TTAAAAATAT
55296877 ATATTATTAAA
1 ATATT-TTAAA
55296888 ATATTTTAAA
1 ATATTTTAAA
*
55296898 TATATTTCAAA
1 -ATATTTTAAA
55296909 AT-TTTTAAA
1 ATATTTTAAA
55296918 AT
1 AT
55296920 TAATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 7 0.24
11 14 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (10 bp):
ATATTTTAAA
Found at i:55297368 original size:17 final size:17
Alignment explanation
Indices: 55297343--55297384 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
55297333 GGTGATTGTT
*
55297343 GACAGATTGGCTAAATC
1 GACACATTGGCTAAATC
55297360 GACACATTGGCTAAATC
1 GACACATTGGCTAAATC
55297377 GACACATT
1 GACACATT
55297385 TTATTCCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (17 bp):
GACACATTGGCTAAATC
Found at i:55299791 original size:21 final size:21
Alignment explanation
Indices: 55299767--55299875 Score: 114
Period size: 21 Copynumber: 5.2 Consensus size: 21
55299757 GTTTTACTTG
55299767 CTGTTTAGCTCTTACGAGCTT
1 CTGTTTAGCTCTTACGAGCTT
* *
55299788 CTGTTCAGCTCTTACAAGCTT
1 CTGTTTAGCTCTTACGAGCTT
* * * * *
55299809 CTATTCAACTCTTATGAGTTT
1 CTGTTTAGCTCTTACGAGCTT
55299830 CTGTTTAGCTCTTTACGAGCTT
1 CTGTTTAGCTC-TTACGAGCTT
* *
55299852 CTATTTAGCT-TT-CAAGCTT
1 CTGTTTAGCTCTTACGAGCTT
55299871 CTGTT
1 CTGTT
55299876 CGCTCAATTG
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
19 10 0.14
20 2 0.03
21 43 0.60
22 17 0.24
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (21 bp):
CTGTTTAGCTCTTACGAGCTT
Found at i:55300378 original size:23 final size:23
Alignment explanation
Indices: 55300352--55300406 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
55300342 ATAACCAACT
*
55300352 TATATATG-GGTATGAGAATGAAG
1 TATATATGTGATATGAGAATG-AG
*
55300375 TATAT-TGTGATATGAGTATGAG
1 TATATATGTGATATGAGAATGAG
55300397 TGATATATGT
1 T-ATATATGT
55300407 ATGTATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 19 0.70
24 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (23 bp):
TATATATGTGATATGAGAATGAG
Found at i:55302402 original size:13 final size:13
Alignment explanation
Indices: 55302384--55302415 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
55302374 CACATAATCA
55302384 TGTGGCCAAGCCG
1 TGTGGCCAAGCCG
*
55302397 TGTGGCCAGGCCG
1 TGTGGCCAAGCCG
55302410 TGTGGC
1 TGTGGC
55302416 ACCAAATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (13 bp):
TGTGGCCAAGCCG
Done.