Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 173 of 199
Found at i:50344652 original size:14 final size:14
Alignment explanation
Indices: 50344630--50344669 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50344620 TATGACACCA
*
50344630 AATATATTTTAAAC
1 AATAAATTTTAAAC
50344644 AATAAATTTTAAAC
1 AATAAATTTTAAAC
* *
50344658 ATTAAAGTTTAA
1 AATAAATTTTAA
50344670 TTTTAAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:50350783 original size:21 final size:21
Alignment explanation
Indices: 50350757--50350807 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
50350747 CTACAACTTA
* *
50350757 AAGCAGATGCGGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
50350778 AAGCAGAGGCAGCAGTGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
50350799 AAGCTGAGG
1 AAGCAGAGG
50350808 TTCAACGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.43, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:50350844 original size:87 final size:87
Alignment explanation
Indices: 50350707--50350870 Score: 235
Period size: 87 Copynumber: 1.9 Consensus size: 87
50350697 AGGCAACATC
*
50350707 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAG
1 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATGCGGCAG
50350772 CGAGAGAAGCAGAGGCAGCAGT
66 CGAGAGAAGCAGAGGCAGCAGT
* * * *
50350794 GAGAGAAGCTGAGGTTCAACGAAAG-TATG-AGCAACTGCAGC-AGTAGCTTAAAGAAGATGCGG
1 GAGAGAAGCTGAGGTTCAA-AAAAGATATGAAG-AACTCCAGCTA-CAACTTAAAGAAGATGCGG
50350856 CAGCGAGAGAAGCAG
63 CAGCGAGAGAAGCAG
50350871 CGGCTTCAGC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
86 3 0.04
87 62 0.90
88 4 0.06
ACGTcount: A:0.39, C:0.16, G:0.32, T:0.13
Consensus pattern (87 bp):
GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGAAGATGCGGCAG
CGAGAGAAGCAGAGGCAGCAGT
Found at i:50350882 original size:21 final size:21
Alignment explanation
Indices: 50350856--50350913 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
50350846 GAAGATGCGG
* * *
50350856 CAGCGAGAGAAGCAGCGGCTT
1 CAGCGAGGGAAGCAGAGGCTA
*
50350877 CAGCGAGGGAAGTAGAGGCTA
1 CAGCGAGGGAAGCAGAGGCTA
50350898 CAGCGAGGGAAGCAGA
1 CAGCGAGGGAAGCAGA
50350914 ACAGCATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.41, T:0.07
Consensus pattern (21 bp):
CAGCGAGGGAAGCAGAGGCTA
Found at i:50351140 original size:14 final size:14
Alignment explanation
Indices: 50351121--50351150 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50351111 TTATATAGAT
50351121 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
50351135 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
50351149 TT
1 TT
50351151 TCTTCTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.53
Consensus pattern (14 bp):
TTGGTTAGATTTGG
Found at i:50351329 original size:43 final size:43
Alignment explanation
Indices: 50351220--50351651 Score: 722
Period size: 43 Copynumber: 10.0 Consensus size: 43
50351210 ATTAGCGGCA
*
50351220 TTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
*
50351263 -TTTTCGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
50351305 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
*
50351348 TTTTTTGGCTAAGCGCCGCTAAAGACCATGATCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
50351391 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
*
50351434 TTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
*
50351477 TTTTTTGGCTAAGCGTCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * * *
50351520 TTTTGTGGCTAAGCGCCGCTAAAGACTATGATCTATAGTGGCA
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
**
50351563 TTTTTCAGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
1 TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * *
50351606 TTTTTTAGGCTAAGCGCCACTAAAAACCATGGTCTATAGCGGCG
1 TTTTTT-GGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
50351650 TT
1 TT
50351652 GCAAAGAAAA
Statistics
Matches: 363, Mismatches: 24, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
42 40 0.11
43 288 0.79
44 35 0.10
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
Found at i:50352049 original size:22 final size:23
Alignment explanation
Indices: 50352005--50352058 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
50351995 ATTATGAAAG
**
50352005 AAAAT-TATATTATAAATCTTAA
1 AAAATATATATTATAAATAATAA
50352027 AAAATATATATTATAAA-AATAA
1 AAAATATATATTATAAATAATAA
**
50352049 ATTATATATA
1 AAAATATATA
50352059 GTAAACAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATATATATTATAAATAATAA
Found at i:50352063 original size:20 final size:21
Alignment explanation
Indices: 50352026--50352076 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
50352016 ATAAATCTTA
*
50352026 AAAAATATATATTATAAA-A-
1 AAAATTATATATTATAAACAG
50352045 ATAAATTATATA-TAGTAAACAG
1 A-AAATTATATATTA-TAAACAG
50352067 AAAATTATAT
1 AAAATTATAT
50352077 TATTTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 3 0.11
20 13 0.48
21 10 0.37
22 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAATTATATATTATAAACAG
Found at i:50355500 original size:44 final size:44
Alignment explanation
Indices: 50355447--50355560 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
50355437 TCATCGTTTT
* *
50355447 AATCCGCTCCACTGCAACTTCAAGGAGATAGGA-TTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-GTAGCTTC
* * * *
50355491 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTTGTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTC
*
50355535 AATCTGCCCCACTGCAACTTCAAGGA
1 AATCTGCTCCACTGCAACTTCAAGGA
50355561 AATGAGATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 57 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTC
Found at i:50355895 original size:218 final size:218
Alignment explanation
Indices: 50355571--50356008 Score: 671
Period size: 218 Copynumber: 2.0 Consensus size: 218
50355561 AATGAGATTT
* **
50355571 GTTTTCGATCTGTTTCACTGCCAGTACAGGAAGACAAGATCTACGGTCTTCAACCTACTCCACTG
1 GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTG
* * * *
50355636 TTGCTCATGGAGATAGGACTAGTGGCTTATATCTACTTCCCTATTGCCTTACGAAGATAAGATTC
66 CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTATTACCTTACGAAGATAAGATTC
* * *
50355701 ACCGTCTTCGATTTGCTCCACTACTG-TTCAGGGAGATAGGATCTGCAATCTTCAACCTACTCCA
131 ACCATCTTCGATTTGCTCCACTACTGCTT-AGGGAGACAAGATCTGCAATCTTCAACCTACTCCA
*
50355765 CTACTGCTCAGGGAGATAGGACCA
195 CTACCGCTCAGGGAGATAGGACCA
* *
50355789 GTTTTCGATCTGCTTCACTGCTAGTACAGGAAGACAAGATCTACAATCTTCAATCTACTCCACTG
1 GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTG
* **
50355854 CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTATTACCTTGGGAAGATAAGATTC
66 CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTATTACCTTACGAAGATAAGATTC
* * *
50355919 GCCATCTTCGATTTGCTCCATTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCAT
131 ACCATCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCAC
* *
50355984 TGCCGCTCGGGGAGATAGGACCA
196 TACCGCTCAGGGAGATAGGACCA
50356007 GT
1 GT
50356009 GGCTTAAATC
Statistics
Matches: 198, Mismatches: 21, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
218 196 0.99
219 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (218 bp):
GTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTG
CTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCCTATTACCTTACGAAGATAAGATTC
ACCATCTTCGATTTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCAC
TACCGCTCAGGGAGATAGGACCA
Found at i:50355979 original size:132 final size:132
Alignment explanation
Indices: 50355820--50356140 Score: 453
Period size: 132 Copynumber: 2.4 Consensus size: 132
50355810 TAGTACAGGA
* * * *
50355820 AGACAAGATCTACAATCTTCAATCTACTCCACTGCTGCTCAAGGAGATAGGACTAGTGGCTTAAA
1 AGACAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTGGCTTAAA
* * * * * * *
50355885 TCTGCTTCCCTATTACCTTGGGAAGATAAGATTCGCCATCTTCGATTTGCTCCATTACTGCTTAG
66 TCTACTTCCATACTACCTTAGGAAGATAAGATTCGCCATCTTCGATATGCTCCACTACTACTTAG
50355950 GG
131 GG
* * *
50355952 AGACAAGATCTGCAATCTTCAACCTACTCCATTGCCGCTCGGGGAGATAGGACCAGTGGCTTAAA
1 AGACAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTGGCTTAAA
* * *
50356017 TCTACTTCTATACTGCCTTAGGAAGATAAGATTCGCCATCTTCGGTATGCTCCACTACTACTTAG
66 TCTACTTCCATACTACCTTAGGAAGATAAGATTCGCCATCTTCGATATGCTCCACTACTACTTAG
50356082 GG
131 GG
* * * *
50356084 AGACAGGATCTGCAATCTTCAACTTACTCCACTACTGCTTAGGGAGATAGGACCAGT
1 AGACAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGT
50356141 TTTTGATCTA
Statistics
Matches: 165, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 165 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (132 bp):
AGACAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGTGGCTTAAA
TCTACTTCCATACTACCTTAGGAAGATAAGATTCGCCATCTTCGATATGCTCCACTACTACTTAG
GG
Found at i:50355982 original size:44 final size:44
Alignment explanation
Indices: 50355934--50356216 Score: 125
Period size: 44 Copynumber: 6.5 Consensus size: 44
50355924 CTTCGATTTG
*
50355934 CTCCATTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTA
* * * ** * * * * *
50355978 CTCCATTGCCGCTCGGGGAGATAGGA-C--CAGTGGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGCAAT--CTTCAACCTA
* * * * **** *
50356021 CTTCTA-TACTGCCTTAGGAAGATAAGAT-TCGCCATCTTCGGTATG
1 C-TCCACTACTG-CTTAGGGAGACAAGATCT-GCAATCTTCAACCTA
* * *
50356066 CTCCACTACTACTTAGGGAGACAGGATCTGCAATCTTCAACTTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTA
* * * * ** *
50356110 CTCCACTACTGCTTAGGGAGATAGGA-C--CAGTTTTTGATCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTA
* * * *
50356151 CTTCACTACCAG-TACAGGAAGACAAGATCTGCAATCTTCAACCTA
1 CTCCACTA-CTGCT-TAGGGAGACAAGATCTGCAATCTTCAACCTA
*
50356196 CTCCACTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGA
50356217 TAGGACTTAA
Statistics
Matches: 167, Mismatches: 56, Indels: 32
0.65 0.22 0.13
Matches are distributed among these distances:
41 19 0.11
42 11 0.07
43 15 0.09
44 92 0.55
45 28 0.17
47 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTA
Found at i:50357148 original size:15 final size:16
Alignment explanation
Indices: 50357120--50357155 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
50357110 CCTCTCCTTT
50357120 TTTTTCCTTCTTTTTC
1 TTTTTCCTTCTTTTTC
*
50357136 TTTTT-CTTTTTTTTC
1 TTTTTCCTTCTTTTTC
50357151 TTTTT
1 TTTTT
50357156 TATGAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCCTTCTTTTTC
Found at i:50358650 original size:18 final size:18
Alignment explanation
Indices: 50358627--50358662 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
50358617 TTCTTTTCTC
*
50358627 CATTCTTAATTATCGCGT
1 CATTCTCAATTATCGCGT
50358645 CATTCTCAATTATCGCGT
1 CATTCTCAATTATCGCGT
50358663 TTACCCCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (18 bp):
CATTCTCAATTATCGCGT
Found at i:50366549 original size:39 final size:39
Alignment explanation
Indices: 50366495--50366574 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
50366485 GGTGTAAGTG
50366495 TTGAACAAGTATGCATCCGACACAAGTATGTTCAAGTTT
1 TTGAACAAGTATGCATCCGACACAAGTATGTTCAAGTTT
50366534 TTGAACAAGTATGCATCCGACACAAGTATGTTCAAGTTT
1 TTGAACAAGTATGCATCCGACACAAGTATGTTCAAGTTT
50366573 TT
1 TT
50366575 CTATATTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (39 bp):
TTGAACAAGTATGCATCCGACACAAGTATGTTCAAGTTT
Found at i:50372182 original size:20 final size:20
Alignment explanation
Indices: 50372157--50372197 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50372147 ACTCAAAGAT
50372157 TAATTTAATAGGTTTTTCAA
1 TAATTTAATAGGTTTTTCAA
50372177 TAATTTAATAGGTTTTTCAA
1 TAATTTAATAGGTTTTTCAA
50372197 T
1 T
50372198 TTATCAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (20 bp):
TAATTTAATAGGTTTTTCAA
Found at i:50372510 original size:16 final size:16
Alignment explanation
Indices: 50372480--50372521 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50372470 GTTATGCCCT
*
50372480 TTTAGAAATTTGTAAAA
1 TTTA-AAATTAGTAAAA
50372497 TTTAAAATTAGTAAAA
1 TTTAAAATTAGTAAAA
*
50372513 -GTAAAATTA
1 TTTAAAATTA
50372522 CACTTTAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 11 0.48
17 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (16 bp):
TTTAAAATTAGTAAAA
Found at i:50382835 original size:18 final size:18
Alignment explanation
Indices: 50382812--50382870 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
50382802 GAGTGGGAGG
*
50382812 GAACCGAGTGACCGGAAT
1 GAACCGAATGACCGGAAT
*
50382830 GAACCGAATTACCGGAAT
1 GAACCGAATGACCGGAAT
* *
50382848 -TACCGGAATAACCGGAAT
1 GAACC-GAATGACCGGAAT
*
50382866 TAACC
1 GAACC
50382871 CAATTACCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
17 3 0.09
18 28 0.82
19 3 0.09
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (18 bp):
GAACCGAATGACCGGAAT
Found at i:50382847 original size:9 final size:9
Alignment explanation
Indices: 50382822--50382867 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
50382812 GAACCGAGTG
*
50382822 ACCGGAATGA
1 ACCGGAAT-T
50382832 ACC-GAATT
1 ACCGGAATT
50382840 ACCGGAATT
1 ACCGGAATT
*
50382849 ACCGGAATA
1 ACCGGAATT
50382858 ACCGGAATT
1 ACCGGAATT
50382867 A
1 A
50382868 ACCCAATTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 3 0.09
9 26 0.81
10 3 0.09
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (9 bp):
ACCGGAATT
Found at i:50382875 original size:27 final size:27
Alignment explanation
Indices: 50382822--50382878 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
50382812 GAACCGAGTG
*
50382822 ACCGGAATGAACCGAATTACCGGAATT
1 ACCGGAATGAACCGAATTACCGCAATT
50382849 ACCGGAAT-AACCGGAATTAACC-CAATT
1 ACCGGAATGAACC-GAATT-ACCGCAATT
50382876 ACC
1 ACC
50382879 CAACCCAACC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 4 0.15
27 20 0.74
28 3 0.11
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (27 bp):
ACCGGAATGAACCGAATTACCGCAATT
Found at i:50383013 original size:9 final size:9
Alignment explanation
Indices: 50382999--50383092 Score: 106
Period size: 9 Copynumber: 10.4 Consensus size: 9
50382989 GTAGTGATTC
*
50382999 AATTTGGTT
1 AATTCGGTT
*
50383008 AATTTGGTT
1 AATTCGGTT
50383017 AATTCGGTT
1 AATTCGGTT
50383026 AATTCCGG-T
1 AATT-CGGTT
50383035 AATTCCGG-T
1 AATT-CGGTT
50383044 AATTCCGG-T
1 AATT-CGGTT
50383053 AATTCGGTT
1 AATTCGGTT
50383062 AATTCTGG-T
1 AATTC-GGTT
50383071 AATTCGGTT
1 AATTCGGTT
50383080 AATTCGGTT
1 AATTCGGTT
50383089 AATT
1 AATT
50383093 TTTAACCAAA
Statistics
Matches: 80, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
8 5 0.06
9 70 0.88
10 5 0.06
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:50383037 original size:27 final size:27
Alignment explanation
Indices: 50382999--50383092 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
50382989 GTAGTGATTC
*
50382999 AATTTGGTTAATT-TGGTTAATTCGGTT
1 AATTCGGTTAATTCTGG-TAATTCGGTT
*
50383026 AATTCCGG-TAATTCCGGTAATTCCGG-T
1 AATT-CGGTTAATTCTGGTAATT-CGGTT
50383053 AATTCGGTTAATTCTGGTAATTCGGTT
1 AATTCGGTTAATTCTGGTAATTCGGTT
50383080 AATTCGGTTAATT
1 AATTCGGTTAATT
50383093 TTTAACCAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.10
27 46 0.78
28 7 0.12
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (27 bp):
AATTCGGTTAATTCTGGTAATTCGGTT
Found at i:50383270 original size:12 final size:12
Alignment explanation
Indices: 50383253--50383277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50383243 TGTTATTTCA
50383253 GGTCGGTTAACC
1 GGTCGGTTAACC
50383265 GGTCGGTTAACC
1 GGTCGGTTAACC
50383277 G
1 G
50383278 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:50393055 original size:62 final size:57
Alignment explanation
Indices: 50392968--50393095 Score: 150
Period size: 57 Copynumber: 2.2 Consensus size: 57
50392958 AATTGACGGT
*
50392968 AAAAAGGATCTAGCCCGGACAGGTGATGCTATCCTGATATAGCCCTCCCAAAGAATATGTGTG
1 AAAAAGGATCTAGCCCAGACAGGTGAT-C--T--TGATATAGCCCTCCCAAAGAATATGTG-G
** *
50393031 AAAAA-GATCTAGCCCAGATGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGGATCTAGCCCAGACAGGTGATCTTGATATAGCCCTCCCAAAGAATATGTGG
*
50393087 AAAATGGAT
1 AAAAAGGAT
50393096 TTAACCCGGA
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
56 5 0.08
57 29 0.49
59 1 0.02
61 1 0.02
62 18 0.31
63 5 0.08
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (57 bp):
AAAAAGGATCTAGCCCAGACAGGTGATCTTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:50403288 original size:23 final size:23
Alignment explanation
Indices: 50403253--50403303 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50403243 ACCTACTTTC
* * *
50403253 TTACTGTATTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
50403276 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
50403299 TTACA
1 TTACA
50403304 CCTTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:50404464 original size:128 final size:128
Alignment explanation
Indices: 50404236--50404491 Score: 361
Period size: 128 Copynumber: 2.0 Consensus size: 128
50404226 TAAACAGATT
* * * *
50404236 CATGATCAATTCTTTTTGGGTCTAGTCCGATGTACTGTTAGTCCAGTCAGTCACATCTATGTCTT
1 CATGATCAATTCTTCTTGAGTCTAGTCCGATGTACTATCAGTCCAGTCAGTCACATCTATGTCTT
* * * * * ** *
50404301 TATCTTTTGGGAGTCATTCGCTCTAATGTGCAAGACAAAGCATCTCC-CAAATTGGACTTGATA
66 TATCTTCTAGGAGTCATCCACTCCAATGCCCAAGACAAAACATCTCCTC-AATTGGACTTGATA
* * *
50404364 CATGATCTATTCTTCTTGAGTCTAGTCCGATGTACTATCAGTCTAGTTAGTCACATCTATGTCTT
1 CATGATCAATTCTTCTTGAGTCTAGTCCGATGTACTATCAGTCCAGTCAGTCACATCTATGTCTT
50404429 TATCTTCTAGGAGTCATCCACTCCAATGCCCAAGACAAAACATCTCCTCAATTGGACTTGATA
66 TATCTTCTAGGAGTCATCCACTCCAATGCCCAAGACAAAACATCTCCTCAATTGGACTTGATA
50404492 GACGACATAT
Statistics
Matches: 112, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
128 111 0.99
129 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (128 bp):
CATGATCAATTCTTCTTGAGTCTAGTCCGATGTACTATCAGTCCAGTCAGTCACATCTATGTCTT
TATCTTCTAGGAGTCATCCACTCCAATGCCCAAGACAAAACATCTCCTCAATTGGACTTGATA
Found at i:50440751 original size:26 final size:27
Alignment explanation
Indices: 50440705--50440755 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
50440695 TCTTAAAGAT
*
50440705 AATTTTGATAGTTAAATTTAATTTTGA
1 AATTTTGATAATTAAATTTAATTTTGA
50440732 AATTTTGA-AATT-AATCTTAATTTT
1 AATTTTGATAATTAAAT-TTAATTTT
50440756 AAAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 11 0.50
27 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (27 bp):
AATTTTGATAATTAAATTTAATTTTGA
Found at i:50440908 original size:13 final size:15
Alignment explanation
Indices: 50440890--50440924 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
50440880 ATTTAACTTC
50440890 TTAAAAATAT-AAT-
1 TTAAAAATATAAATA
50440903 TTAAAAATATAAATA
1 TTAAAAATATAAATA
50440918 TTAAAAA
1 TTAAAAA
50440925 AGACAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 3 0.15
15 7 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAAATATAAATA
Found at i:50442421 original size:3 final size:3
Alignment explanation
Indices: 50442413--50442453 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
50442403 TATATAGCAT
50442413 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
50442454 AATAATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:50443115 original size:48 final size:48
Alignment explanation
Indices: 50443034--50443171 Score: 152
Period size: 48 Copynumber: 2.9 Consensus size: 48
50443024 AAAACTATTG
* *
50443034 ATACGTTGTGGATGAACCACTGGTCGTGTAGATAAGCTACCGGTTAAA
1 ATACGTTGTGGATGAACCACTGGTTGTGCAGATAAGCTACCGGTTAAA
* * ** *
50443082 ATACGTTGTGGATGAACCACTTGTTGTACAGAT-AGACTGTCGTTTAAA
1 ATACGTTGTGGATGAACCACTGGTTGTGCAGATAAG-CTACCGGTTAAA
* ** * *
50443130 ATCCAATGTGGATGAACCACTGGTTGTGCAAATAAACTACCG
1 ATACGTTGTGGATGAACCACTGGTTGTGCAGATAAGCTACCG
50443172 ACTACTTCCT
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
47 2 0.03
48 69 0.96
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (48 bp):
ATACGTTGTGGATGAACCACTGGTTGTGCAGATAAGCTACCGGTTAAA
Found at i:50445157 original size:47 final size:47
Alignment explanation
Indices: 50445088--50445179 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
50445078 TTAGGTGCGC
50445088 CGCACCTAGGGCCTACTGACTTTTCTGCCAGTGCCGCCACCGTCGCG
1 CGCACCTAGGGCCTACTGACTTTTCTGCCAGTGCCGCCACCGTCGCG
50445135 CGCACCTAGGGCCTACTGACTTTTCTGCCAGTGCCGCCACCGTCG
1 CGCACCTAGGGCCTACTGACTTTTCTGCCAGTGCCGCCACCGTCG
50445180 TGCCGCACGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.13, C:0.40, G:0.25, T:0.22
Consensus pattern (47 bp):
CGCACCTAGGGCCTACTGACTTTTCTGCCAGTGCCGCCACCGTCGCG
Found at i:50446192 original size:3 final size:3
Alignment explanation
Indices: 50446184--50446263 Score: 65
Period size: 3 Copynumber: 25.7 Consensus size: 3
50446174 TTTAGTCCCG
* * *
50446184 TTA TTA TTA TTA TTA TTA -AA CTAA TCA GTT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
*
50446229 TTA TTA TTA TTGCA TTTA TTA TTA TAA TTA TTA TT
1 TTA TTA TTA TT--A -TTA TTA TTA TTA TTA TTA TT
50446264 TACCCATTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 3 0.05
3 55 0.85
4 4 0.06
5 1 0.02
6 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:50446271 original size:27 final size:27
Alignment explanation
Indices: 50446217--50446274 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
50446207 ATCAGTTTTA
* **
50446217 TTATTATTATTATTATTATTATTGCAT
1 TTATTATTATAATTATTATTATCCCAT
50446244 TTATTATTATAATTATTATT-TACCCAT
1 TTATTATTATAATTATTATTAT-CCCAT
50446271 TTAT
1 TTAT
50446275 ACCGTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTATTATAATTATTATTATCCCAT
Found at i:50446323 original size:23 final size:21
Alignment explanation
Indices: 50446279--50446321 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50446269 ATTTATACCG
50446279 TTTTTTAGATTTTGTTATATA
1 TTTTTTAGATTTTGTTATATA
50446300 TTTTTTAGATTTTGTTATATA
1 TTTTTTAGATTTTGTTATATA
50446321 T
1 T
50446322 ATACATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTTTTAGATTTTGTTATATA
Found at i:50446335 original size:16 final size:16
Alignment explanation
Indices: 50446314--50446353 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
50446304 TTAGATTTTG
*
50446314 TTATATATATACATAC
1 TTATATATATACACAC
50446330 TTATATATATACACAC
1 TTATATATATACACAC
*
50446346 TTACATAT
1 TTATATAT
50446354 TTCTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATATATATACACAC
Found at i:50448217 original size:22 final size:22
Alignment explanation
Indices: 50448184--50448261 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
50448174 AATATTTTTA
*
50448184 TTTTTTTA-TTTTTTAAAATAC
1 TTTTTTAATTTTTTTAAAATAC
50448205 TTTTTTAATTTTTTT--AA-A-
1 TTTTTTAATTTTTTTAAAATAC
*
50448223 -TTTTAAATTTTTTTTAAAATAC
1 TTTTTTAA-TTTTTTTAAAATAC
50448245 TTTTTTAATTTTTTTAA
1 TTTTTTAATTTTTTTAA
50448262 TTTTAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
17 6 0.13
18 7 0.15
19 1 0.02
20 4 0.09
21 8 0.17
22 15 0.32
23 6 0.13
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTTAATTTTTTTAAAATAC
Found at i:50448218 original size:23 final size:23
Alignment explanation
Indices: 50448192--50448259 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
50448182 TATTTTTTTA
50448192 TTTTTTAAAATACTTTTTTAA-T
1 TTTTTTAAAATACTTTTTTAATT
*
50448214 TTTTTT--AA-A--TTTTAAATT
1 TTTTTTAAAATACTTTTTTAATT
50448232 TTTTTTAAAATACTTTTTTAATT
1 TTTTTTAAAATACTTTTTTAATT
50448255 TTTTT
1 TTTTT
50448260 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
17 6 0.16
18 7 0.18
19 1 0.03
20 4 0.11
21 1 0.03
22 6 0.16
23 13 0.34
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTTTAAAATACTTTTTTAATT
Found at i:50448230 original size:28 final size:28
Alignment explanation
Indices: 50448178--50448239 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
50448168 ATAATAAATA
**
50448178 TTTTT-ATTTTTTTATTTTTTAAAATACT
1 TTTTTAATTTTTTTAAATTTTAAAAT-CT
*
50448206 TTTTTAATTTTTTTAAATTTT-AAATTT
1 TTTTTAATTTTTTTAAATTTTAAAATCT
50448233 TTTTTAA
1 TTTTTAA
50448240 AATACTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 8 0.27
28 9 0.30
29 13 0.43
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTTTAATTTTTTTAAATTTTAAAATCT
Found at i:50448242 original size:40 final size:39
Alignment explanation
Indices: 50448192--50448297 Score: 176
Period size: 40 Copynumber: 2.7 Consensus size: 39
50448182 TATTTTTTTA
*
50448192 TTTTTTAAAATACTTTTTTAATTTTTTTAAATTTTAAATT
1 TTTTTTAAAATACTTTTTTAATTTTTTT-AATTTTAAAAT
50448232 TTTTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAAT
1 TTTTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAAT
*
50448271 ATTTTTAAAATACTTTTTTTAATTTTT
1 TTTTTTAAAATAC-TTTTTTAATTTTT
50448298 GTTTTAATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 22 0.35
40 41 0.65
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTTAAAATACTTTTTTAATTTTTTTAATTTTAAAAT
Found at i:50448258 original size:8 final size:9
Alignment explanation
Indices: 50448178--50448265 Score: 56
Period size: 9 Copynumber: 9.2 Consensus size: 9
50448168 ATAATAAATA
50448178 TTTTT-ATT
1 TTTTTAATT
50448186 TTTTT-ATT
1 TTTTTAATT
*
50448194 TTTTAAAATACT
1 TTTT-TAAT--T
50448206 TTTTTAATT
1 TTTTTAATT
*
50448215 TTTTTAA-A
1 TTTTTAATT
*
50448223 TTTTAAATTT
1 TTTTTAA-TT
50448233 TTTTTAAAATACT
1 TTTTT--AAT--T
50448246 TTTTTAATT
1 TTTTTAATT
50448255 TTTTTAATT
1 TTTTTAATT
50448264 TT
1 TT
50448266 AAAATATTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
8 18 0.28
9 20 0.31
10 6 0.09
11 7 0.11
12 7 0.11
13 6 0.09
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAATT
Found at i:50448287 original size:28 final size:28
Alignment explanation
Indices: 50448234--50448287 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
50448224 TTTAAATTTT
* **
50448234 TTTTAAAATACTTTTTTAATTTTTTTAA
1 TTTTAAAATACTTTTTAAATACTTTTAA
50448262 TTTTAAAATA-TTTTTAAAATACTTTT
1 TTTTAAAATACTTTTT-AAATACTTTT
50448288 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTTAAAATACTTTTTAAATACTTTTAA
Found at i:50451566 original size:95 final size:96
Alignment explanation
Indices: 50451365--50451667 Score: 369
Period size: 95 Copynumber: 3.2 Consensus size: 96
50451355 TAAATAAGGG
* * ** * * * *
50451365 ATTAGGGTTTAGGATTTCTCAATTAAATTAATTATAAATTTTTTCAAAATTGGATTA-GGTTTCG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTTAAAAATTAGATTAGGGTTTAG
* * *
50451429 TGTTGATGGTTTTTAAAGAAAAAATCAATTAA
66 TGTTAAGGGTTTTT-AAGAAAAAATCAAATAA
* * *
50451461 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTA-AATTTTTTTTAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTTAAAAATTAGATTAGGGTTTAG
50451525 TGTTAAGGGTTTTTAAGAAAAAATCAAATAA
66 TGTTAAGGGTTTTTAAGAAAAAATCAAATAA
* ** *
50451556 ATTAGGGTTTA-AGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGGTTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTTAAAAATTAGATTAGGGTTTAG
* * *
50451620 TGTTTAGGGTTATTAAGGAAAAAATTAAATAA
66 TGTTAAGGGTTTTTAA-GAAAAAATCAAATAA
*
50451652 ATTAGGGTTTAAGGTT
1 ATTAGGGTTTAGGGTT
50451668 TAGGGTTACT
Statistics
Matches: 179, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
94 20 0.11
95 85 0.47
96 71 0.40
97 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (96 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTTAAAAATTAGATTAGGGTTTAG
TGTTAAGGGTTTTTAAGAAAAAATCAAATAA
Found at i:50453070 original size:18 final size:18
Alignment explanation
Indices: 50453044--50453086 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50453034 GACTAGAAAC
* * *
50453044 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
50453062 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
50453080 AGGATAC
1 AGGATAC
50453087 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:50453740 original size:7 final size:7
Alignment explanation
Indices: 50453728--50453759 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
50453718 TATTAGTTAT
50453728 ATACATA
1 ATACATA
50453735 ATACATA
1 ATACATA
50453742 ATACATA
1 ATACATA
50453749 ATACATA
1 ATACATA
50453756 ATAC
1 ATAC
50453760 TAAATACTAA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:50453765 original size:14 final size:14
Alignment explanation
Indices: 50453734--50453780 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
50453724 TTATATACAT
50453734 AATACATAATAC-A
1 AATACATAATACTA
50453747 TAATACATAATACTA
1 -AATACATAATACTA
*
50453762 AATAC-TAAATATTA
1 AATACAT-AATACTA
50453776 AATAC
1 AATAC
50453781 CAATCGACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 1 0.03
14 28 0.93
15 1 0.03
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
AATACATAATACTA
Found at i:50454962 original size:12 final size:11
Alignment explanation
Indices: 50454949--50455003 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
50454939 TTAAGAGGAT
50454949 TTTGAGAGAAA
1 TTTGAGAGAAA
*
50454960 TTTGAGAGGAA
1 TTTGAGAGAAA
*
50454971 CTTGAGAGAATA
1 TTTGAGAGAA-A
*
50454983 TTAGAGAGAAA
1 TTTGAGAGAAA
50454994 -TTGAGAGAAA
1 TTTGAGAGAAA
50455004 GGATTTAGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
10 9 0.24
11 19 0.51
12 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:50454967 original size:22 final size:22
Alignment explanation
Indices: 50454950--50455003 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
50454940 TAAGAGGATT
* *
50454950 TTGAGAGAAATTTGAGAGGAAC
1 TTGAGAGAAATTAGAGAGGAAA
50454972 TTGAGAGAATATTAGAGA-GAAA
1 TTGAGAGAA-ATTAGAGAGGAAA
50454994 TTGAGAGAAA
1 TTGAGAGAAA
50455004 GGATTTAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.03
22 21 0.72
23 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTAGAGAGGAAA
Found at i:50463197 original size:24 final size:24
Alignment explanation
Indices: 50463147--50463198 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
50463137 AATCAAAGTC
** **
50463147 AAATATATTATGTTAATAAATGGT
1 AAATATATTATACTAATAAATACT
*
50463171 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
50463195 AAAT
1 AAAT
50463199 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:50464060 original size:9 final size:9
Alignment explanation
Indices: 50464046--50464076 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50464036 GTTAAACGAA
50464046 TCGAGTTAT
1 TCGAGTTAT
*
50464055 TCGAGTTAA
1 TCGAGTTAT
50464064 TCGAGTTAT
1 TCGAGTTAT
50464073 TCGA
1 TCGA
50464077 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:50464147 original size:9 final size:9
Alignment explanation
Indices: 50464130--50464166 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50464120 TGAGTTTTCG
50464130 AATTCGAAT
1 AATTCGAAT
*
50464139 AACTCGAAT
1 AATTCGAAT
*
50464148 AATTCAAAT
1 AATTCGAAT
50464157 AATTCGAAT
1 AATTCGAAT
50464166 A
1 A
50464167 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50465287 original size:5 final size:5
Alignment explanation
Indices: 50465277--50465312 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
50465267 CTCGAAAATT
50465277 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
50465313 CGAATGCTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:50470357 original size:22 final size:22
Alignment explanation
Indices: 50470329--50470374 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
50470319 GGAAGCTTTC
*
50470329 ACATTTGATCTGTCTGCCATTA
1 ACATTTGATCTGTCGGCCATTA
50470351 ACATTTGATCTGTCGGCCATTA
1 ACATTTGATCTGTCGGCCATTA
50470373 AC
1 AC
50470375 TAGATTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (22 bp):
ACATTTGATCTGTCGGCCATTA
Found at i:50471733 original size:30 final size:31
Alignment explanation
Indices: 50471699--50471756 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
50471689 TCATTGTTGT
*
50471699 ATTAGTTTATACA-TTTAT-AATTTTTGAAGG
1 ATTAGATTATA-ATTTTATCAATTTTTGAAGG
50471729 ATTAGATTATAATTTTATCAATTTTTGA
1 ATTAGATTATAATTTTATCAATTTTTGA
50471757 GGCTAAAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 15 0.60
31 9 0.36
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.52
Consensus pattern (31 bp):
ATTAGATTATAATTTTATCAATTTTTGAAGG
Found at i:50474217 original size:21 final size:22
Alignment explanation
Indices: 50474193--50474233 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
50474183 AAACGATGTA
*
50474193 GTTTTGTCTTTTAA-TTTAATG
1 GTTTTGACTTTTAACTTTAATG
50474214 GTTTTGACTTTTAACTTTAA
1 GTTTTGACTTTTAACTTTAA
50474234 AAAAGGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.59
Consensus pattern (22 bp):
GTTTTGACTTTTAACTTTAATG
Found at i:50474422 original size:17 final size:16
Alignment explanation
Indices: 50474392--50474441 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 16
50474382 AACTCAAACT
50474392 ATTTAATTCAAATTTAA
1 ATTTAATTCAAA-TTAA
**
50474409 ATTTAATTTGAATTAA
1 ATTTAATTCAAATTAA
*
50474425 A--TAGTTCAAATTAA
1 ATTTAATTCAAATTAA
50474439 ATT
1 ATT
50474442 CAAATAACTC
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
14 11 0.42
16 5 0.19
17 10 0.38
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTTAATTCAAATTAA
Found at i:50474465 original size:23 final size:23
Alignment explanation
Indices: 50474438--50474509 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
50474428 GTTCAAATTA
50474438 AATTCAAATAACTCGAACTATTT
1 AATTCAAATAACTCGAACTATTT
*
50474461 AATTCAAATAACTTG----A-TT
1 AATTCAAATAACTCGAACTATTT
*
50474479 AACTCAAATAACTCGAACTATTT
1 AATTCAAATAACTCGAACTATTT
50474502 AATTCAAA
1 AATTCAAA
50474510 ATTTAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 15 0.38
19 1 0.03
22 1 0.03
23 23 0.57
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTCAAATAACTCGAACTATTT
Found at i:50483720 original size:18 final size:20
Alignment explanation
Indices: 50483678--50483722 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
50483668 GCTACAAATG
*
50483678 TAATTTACCTAATATAAAAA
1 TAATTTACCTAATACAAAAA
*
50483698 CAATTTACCT-A-ACAAAAA
1 TAATTTACCTAATACAAAAA
50483716 TAATTTA
1 TAATTTA
50483723 AAAAATTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 12 0.55
19 1 0.05
20 9 0.41
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (20 bp):
TAATTTACCTAATACAAAAA
Found at i:50492825 original size:21 final size:21
Alignment explanation
Indices: 50492786--50492824 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
50492776 GTTCTTCGAT
*
50492786 TTTGTTTGTTTTTCATTTTAG
1 TTTGTTTGTATTTCATTTTAG
50492807 TTTGTTTG-ATTTCATTTT
1 TTTGTTTGTATTTCATTTT
50492825 TTTAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.10, C:0.05, G:0.13, T:0.72
Consensus pattern (21 bp):
TTTGTTTGTATTTCATTTTAG
Found at i:50493774 original size:72 final size:70
Alignment explanation
Indices: 50493652--50493814 Score: 179
Period size: 72 Copynumber: 2.3 Consensus size: 70
50493642 AGTTTTTTTT
* *
50493652 TTTATCATTCTTTTACCGTTTAAAATATCTATGCTTAATACTATATATTTA-TTTCATTTATTTA
1 TTTATCATTCTTTTA-C-TTTAAAATATCTATGCTTAATACTATACATTTACTTT-ATCTATTTA
50493716 CTCATCTA
63 CTCATCTA
* *
50493724 TTTATCATTCTTTTACTTTAAAATATTTAAAT-C-TAATATTATGAACATTTACTTTATCTATTT
1 TTTATCATTCTTTTACTTTAAAATATCT--ATGCTTAATACTAT--ACATTTACTTTATCTATTT
* *
50493787 ACTTATTTA
62 ACTCATCTA
*
50493796 TTTATTATTCTTTTACTTT
1 TTTATCATTCTTTTACTTT
50493815 TCAAATGCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
70 19 0.24
71 2 0.03
72 55 0.70
73 3 0.04
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (70 bp):
TTTATCATTCTTTTACTTTAAAATATCTATGCTTAATACTATACATTTACTTTATCTATTTACTC
ATCTA
Found at i:50494185 original size:3 final size:3
Alignment explanation
Indices: 50494097--50494168 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
50494087 ATAAATTGAT
50494097 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50494145 TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
50494169 CTATGTTCAC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50494818 original size:26 final size:26
Alignment explanation
Indices: 50494751--50494824 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
50494741 CCAATATCAT
* *
50494751 AGCAAAACTGCTAGTAATTGTAATGC
1 AGCAAAGCTGCTAGTAATAGTAATGC
* * *
50494777 AACAAAGCTACTAGTAATAGTAGTGC
1 AGCAAAGCTGCTAGTAATAGTAATGC
* *
50494803 AGCAAAGCTGCCAGTAACAGTA
1 AGCAAAGCTGCTAGTAATAGTA
50494825 TATGTGGGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
AGCAAAGCTGCTAGTAATAGTAATGC
Found at i:50495116 original size:52 final size:54
Alignment explanation
Indices: 50494993--50495133 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 54
50494983 GGGTATTTTG
* * * *
50494993 GTCATTTTACCC-TTCAGGAGTAATTCAGTCGTTTTACCCTTCTAGGGTAATTCA
1 GTCATTTTACCCTTTGAGG-GTAATTCAGTCATTTTACCCTTCTAAGGTAAATCA
*
50495047 GTCGTTTTACCCTTTGAGGGTAATTCAGTCATTTTACCC-T-TAAGGTAAATC-
1 GTCATTTTACCCTTTGAGGGTAATTCAGTCATTTTACCCTTCTAAGGTAAATCA
* **
50495098 GATTATTTTACCCTTTGAGGGTAATTGGGTCATTTT
1 G-TCATTTTACCCTTTGAGGGTAATTCAGTCATTTT
50495134 TTGACCTCTC
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
51 1 0.01
52 39 0.51
53 1 0.01
54 30 0.39
55 5 0.07
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (54 bp):
GTCATTTTACCCTTTGAGGGTAATTCAGTCATTTTACCCTTCTAAGGTAAATCA
Found at i:50495132 original size:27 final size:27
Alignment explanation
Indices: 50494993--50495133 Score: 148
Period size: 27 Copynumber: 5.3 Consensus size: 27
50494983 GGGTATTTTG
*
50494993 GTCATTTTACCC-TTCAGGAGTAATTCA
1 GTCATTTTACCCTTTGAGG-GTAATTCA
*
50495020 GTCGTTTTACCCTTCT-AGGGTAATTCA
1 GTCATTTTACCCTT-TGAGGGTAATTCA
*
50495047 GTCGTTTTACCCTTTGAGGGTAATTCA
1 GTCATTTTACCCTTTGAGGGTAATTCA
* *
50495074 GTCATTTTACCC-TT-AAGGTAAATC-
1 GTCATTTTACCCTTTGAGGGTAATTCA
* **
50495098 GATTATTTTACCCTTTGAGGGTAATTGG
1 G-TCATTTTACCCTTTGAGGGTAATTCA
50495126 GTCATTTT
1 GTCATTTT
50495134 TTGACCTCTC
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
24 1 0.01
25 18 0.18
26 5 0.05
27 68 0.69
28 5 0.05
29 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTAATTCA
Found at i:50499302 original size:24 final size:24
Alignment explanation
Indices: 50499240--50499304 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
50499230 TATGTAATTT
* *
50499240 TTTTTAAATCT-ATATATATATTTA
1 TTTTTAAA-CTAATATTTATATATA
50499264 TTTTT--ACGTACATATTTATATATA
1 TTTTTAAAC-TA-ATATTTATATATA
50499288 TTTTTAAACTAATATTT
1 TTTTTAAACTAATATTT
50499305 TTCTTATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
21 1 0.03
22 2 0.06
24 27 0.79
25 2 0.06
26 2 0.06
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTTAAACTAATATTTATATATA
Found at i:50512194 original size:25 final size:26
Alignment explanation
Indices: 50512147--50512195 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
50512137 CAGAATTTGT
*
50512147 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTCGTAATACTTTATTCTTCA
* *
50512173 TTGTTCTCG-AATATTTTTTTCTT
1 TTGTTCTCGTAATACTTTATTCTT
50512196 TTCAAGACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.16, C:0.14, G:0.08, T:0.61
Consensus pattern (26 bp):
TTGTTCTCGTAATACTTTATTCTTCA
Found at i:50513241 original size:44 final size:44
Alignment explanation
Indices: 50513142--50513733 Score: 496
Period size: 44 Copynumber: 13.6 Consensus size: 44
50513132 AGTGGATCGA
* * * * **
50513142 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAAT
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * *
50513187 TGATCTTGTCTTCATATATTGGT-GTGAAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
50513231 AGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GA
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * * * * *
50513274 ATATCTTGTCTTCCCATACTGGT-GGCAAAGTAGATCGAAAAAAGT
1 AGATCTTGTCTTCCTATATTGGTAGG--AAGTAGATCGAAGATAGC
* * * *
50513319 AGATGTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * * *
50513363 AGATCCTGTCTTTCTATATTGGTAGG--G-AG-T-G--GGTCGA
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * *
50513400 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
50513445 AGATCTTGTTTTCATGTATTGGT-GTGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * * *
50513489 AGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * *
50513533 AGATCTTGTCTTCATGTATTAGCGT--GAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCCTATATT-G-GTAGGAAGTAGATCGAAGATAGC
* * *
50513577 AGATCCTGTCATCCTATATTGGTAGGAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
* * *
50513620 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* * *
50513665 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGTAG-GAAGTAGATCGAAGATAGC
* *
50513709 AGATCCTGTCTTCTTATATTGGTAG
1 AGATCTTGTCTTCCTATATTGGTAG
50513734 TAAAGTGGAC
Statistics
Matches: 432, Mismatches: 92, Indels: 46
0.76 0.16 0.08
Matches are distributed among these distances:
37 24 0.06
38 1 0.00
39 1 0.00
40 2 0.00
41 4 0.01
42 6 0.01
43 43 0.10
44 263 0.61
45 85 0.20
46 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (44 bp):
AGATCTTGTCTTCCTATATTGGTAGGAAGTAGATCGAAGATAGC
Found at i:50513250 original size:126 final size:126
Alignment explanation
Indices: 50513100--50513528 Score: 626
Period size: 126 Copynumber: 3.4 Consensus size: 126
50513090 TAGGTTGAAA
*
50513100 ATAGCAGATCCTGTCTTCTTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGT
* * *
50513165 GGCGAAGTAGATCAAAGAAAATTGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGAAG
66 GGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAG
* *
50513226 ATAGTAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGAATATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCG-A-A-G---ATCTTGTCTTCCCAT
* * * *
50513291 ACTGGTGGCAAAGTAGATCGAAA-AAAGTAGATGTTGTCTTCATGTATTGGCGTGAAGTAGATCG
60 ATTGGTGGCGAAGTAGATC-AAAGAAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCG
50513355 AAG
124 AAG
* * *
50513358 ATAGCAGATCCTGTCTTTCTATATTGGTAGGGAGTGGGTCGAAGATCTTGTCTTCCCATATTGGT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGT
* * *
50513423 GGCGAAGTAGATCGAAGAAAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCGAAG
66 GGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAG
* *
50513484 ATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAGA
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
50513529 AAGCAGATCT
Statistics
Matches: 268, Mismatches: 27, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
125 2 0.01
126 150 0.56
127 1 0.00
128 1 0.00
129 2 0.01
130 1 0.00
131 1 0.00
132 107 0.40
133 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (126 bp):
ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGT
GGCGAAGTAGATCAAAGAAAGTAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAG
Found at i:50513612 original size:132 final size:131
Alignment explanation
Indices: 50513100--50513731 Score: 639
Period size: 132 Copynumber: 4.9 Consensus size: 131
50513090 TAGGTTGAAA
* *
50513100 ATAGCAGATCCTGTCTTCTTATATTGGTAGGAAGTGGATC---G-A--AGATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCACAT
* * * **
50513159 ATTGGTGGCGAAGTAGATCAAAGAAAATTGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGA
66 ATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGA
50513224 AG
130 AG
* * * * * *
50513226 ATAGTAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGAATATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCACAT
* * * * * *
50513291 ACTGGTG-GCAAAGTAGATCGAA-AAAAGTAGATGTTGTCTTCATGTATTGGCGTGAAGTAGATC
66 ATTGGCGTG--AAGTAGATCGAAGAAAA-CAGATCTTGTCTTCATATATTGGTGTGAAGTAGATC
50513354 GAAG
128 GAAG
* * * *
50513358 ATAGCAGATCCTGTCTTTCTATATTGGTAGGGAGTGGGTC---G-A--AGATCTTGTCTTCCCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCACAT
* * * * *
50513417 ATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCGA
66 ATTGG-CGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGA
50513482 AG
130 AG
* * **
50513484 ATAACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAGAAAGCAGATCTTGTCTTCATG
1 ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAG-AAGCAGATCTTGTCTTCACA
* * * * * *
50513549 TATTAGCGTGAAGTAGATCGAAGATAACAGATCCTGTCATCCTATATTGGTAG-GAAGTGGATCG
65 TATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATATTGGT-GTGAAGTAGATCG
50513613 AAG
129 AAG
* * * * *
50513616 AT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT
1 ATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAG-AAGCAGATCTTGTCTTCAC
* * * * *
50513680 GTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCTTATATTGGT
64 ATATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATATTGGT
50513732 AGTAAAGTGG
Statistics
Matches: 430, Mismatches: 55, Indels: 36
0.83 0.11 0.07
Matches are distributed among these distances:
126 140 0.33
127 4 0.01
128 1 0.00
129 3 0.01
130 1 0.00
131 29 0.07
132 233 0.54
133 19 0.04
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (131 bp):
ATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAAGCAGATCTTGTCTTCACAT
ATTGGCGTGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGAA
G
Found at i:50513614 original size:258 final size:257
Alignment explanation
Indices: 50513100--50513660 Score: 711
Period size: 258 Copynumber: 2.2 Consensus size: 257
50513090 TAGGTTGAAA
50513100 ATAGCAGATCCTGTC-TTCTTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGG
1 ATAGCAGATCCTGTCTTTC-TATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGG
**
50513164 TGGCGAAGTAGATCAAAGAAAATTGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGAAGATA
65 TGGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGAAGATA
** * * * * *
50513229 GTAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGAATATCTTGTCTTCCCATACT
130 ACAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAGAAGAAGATCTTGTCTTCACATACT
* ** * * *
50513294 GGTGGCAAAGTAGATCGAAAAAAGTAGATGTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG
195 GGTGG-AAAGTAGATCGAAAAAAGCAGATCCTGTCATCATATATTGGAGTGAAGTAGATCGAAG
* *
50513358 ATAGCAGATCCTGTCTTTCTATATTGGTAGGGAGTGGGTCGAAGATCTTGTCTTCCCATATTGGT
1 ATAGCAGATCCTGTCTTTCTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGT
* * * *
50513423 GGCGAAGTAGATCGAAGAAAGCAGATCTTGTTTTCATGTATTGGTGTGAAGTAGATCGAAGATAA
66 GGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGAAGATAA
* ** *
50513488 CAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAGAAAGCAGATCTTGTCTTCATGTATT
131 CAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAG-AAGAAGATCTTGTCTTCACATACT
* * *
50513553 AGCGT-G-AAGTAGATCGAAGATAA-CAGATCCTGTCATCCTATATTGGTAG-GAAGTGGATCGA
195 -G-GTGGAAAGTAGATCGAA-AAAAGCAGATCCTGTCATCATATATTGG-AGTGAAGTAGATCGA
50513614 AG
256 AG
* * * * *
50513616 AT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
1 ATAGCAGATCCTGTCTTTCTATATTGGTAG-GAAGTGGATCGAAGA
50513661 AAGCAGATCT
Statistics
Matches: 261, Mismatches: 35, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
257 23 0.09
258 210 0.80
259 24 0.09
260 2 0.01
261 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (257 bp):
ATAGCAGATCCTGTCTTTCTATATTGGTAGGAAGTGGATCGAAGATCTTGTCTTCCCATATTGGT
GGCGAAGTAGATCAAAGAAAACAGATCTTGTCTTCATATATTGGTGTGAAGTAGATCGAAGATAA
CAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATAGAAGAAGAAGATCTTGTCTTCACATACTG
GTGGAAAGTAGATCGAAAAAAGCAGATCCTGTCATCATATATTGGAGTGAAGTAGATCGAAG
Found at i:50513815 original size:40 final size:40
Alignment explanation
Indices: 50513755--50513908 Score: 145
Period size: 40 Copynumber: 3.8 Consensus size: 40
50513745 GAAGATGGCA
*
50513755 AATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCTCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT-TCATCT
* * *
50513795 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATC-
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT--CATCT
* * * * *
50513836 GATTTTATCTCTCTGAAGTTGCAG-AGAGTAGA-TCATGT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATCT
*
50513874 CAAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
50513909 CTGAATAAGC
Statistics
Matches: 90, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
37 2 0.02
39 2 0.02
40 48 0.53
41 35 0.39
42 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTCATCT
Found at i:50513850 original size:81 final size:81
Alignment explanation
Indices: 50513759--50513913 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
50513749 ATGGCAAATC
*
50513759 TTATCTCTCTGAAGTTGCAGAGAGCAGATC-TCATCTAA-TCCTATCTCCCTGAAGTTGCAGTGG
1 TTATCTCTCTGAAGTTGCAGAGAGCAGATCATC-TC-AAGTCCTATCTCCCTGAAGTTGCAGTAG
*
50513822 AGCAGATTGAAATCGATT
64 AGCAGACTGAAATCGATT
* * * *
50513840 TTATCTCTCTGAAGTTGCAGAGAGTAGATCATGTCAAGTCTTATCTCCCTGAAGTTGTAGTAGAG
1 TTATCTCTCTGAAGTTGCAGAGAGCAGATCATCTCAAGTCCTATCTCCCTGAAGTTGCAGTAGAG
50513905 CAGACTGAA
66 CAGACTGAA
50513914 TAAGCAGGTC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 63 0.95
82 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (81 bp):
TTATCTCTCTGAAGTTGCAGAGAGCAGATCATCTCAAGTCCTATCTCCCTGAAGTTGCAGTAGAG
CAGACTGAAATCGATT
Found at i:50514209 original size:216 final size:216
Alignment explanation
Indices: 50513741--50514337 Score: 705
Period size: 216 Copynumber: 2.8 Consensus size: 216
50513731 TAGTAAAGTG
* * * *
50513741 GACTGAAGATGGCAAATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCT----CATCTAATCCT
1 GACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCCTATAATCCT
* * *
50513801 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAT--C-GATTTTATCTCTCTGAAGTTGCAGAGA
65 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * * * * *
50513863 GTAGATCATGTCAAGTCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAATAAGCAGGTCTTCT
130 GCAGATCATATC-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTAT
* *
50513928 CCTCCTGAAGTTGCAGCGGGGTA
194 CCTCCTGAAGTTGCAGCGAGGCA
** * * **
50513951 GACCCAATATGGCGAATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGCCTATAATCCTA
1 GACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCTATAATCCTA
* *
50514016 TCTCCCCGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAG
66 TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAG
* * *
50514081 CAGATC-TCATCGAGTCTTATTTCCCTGGAGTTGCAGTGGAGCAGGCT-AAGTAAGCAAGT-TTA
131 CAGATCAT-ATC-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-TAAGCAAGTCTTA
* *
50514143 TCCTCTTGAAGTTGCAGTGAGGCA
193 TCCTCCTGAAGTTGCAGCGAGGCA
* *
50514167 GACTGAAGATGACAAATCTTATCTCCCT-AGAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 GACTGAAGATGGCAAATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAGCCTATAATCCT
* * * * *
50514231 ATCTCCCTGAAGTGGCAGTGGAGCGGATTAGAACCACAGATCTTATCTTTCTGAAGTTTCAGAGA
65 ATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
50514296 ACAAATCATATCAGGTCTTATCTCCCTGAAGTTACAGTGGAG
130 GCAGATCATATCA-GTCTTATCTCCCTGAAGTTGCAGTGGAG
50514338 TCGACCCAAG
Statistics
Matches: 325, Mismatches: 49, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
210 32 0.10
211 8 0.02
214 39 0.12
215 2 0.01
216 171 0.53
217 73 0.22
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (216 bp):
GACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCTATAATCCTA
TCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAG
CAGATCATATCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCC
TCCTGAAGTTGCAGCGAGGCA
Found at i:50514213 original size:45 final size:44
Alignment explanation
Indices: 50514095--50514213 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 44
50514085 TCTCATCGAG
* * * *
50514095 TCTTATTTCCCTGGAGTTGCAGTGGAGCAGGCTAAGTAAGCAAG
1 TCTTATCTCCCTAGAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
* * *
50514139 T-TTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGACAAA
1 TCTTATCTCCCTAG-AGTTGCAGTGGA-GCAGACT-AAGTAAG-CAAA
50514183 TCTTATCTCCCTAGAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTAGAGTTGCAGTGGAGCAGA
50514214 TTAAAGCCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
42 6 0.10
43 21 0.35
44 8 0.13
45 19 0.32
46 6 0.10
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAGAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:50528171 original size:36 final size:36
Alignment explanation
Indices: 50528119--50528196 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
50528109 ACTTGGTATT
*
50528119 TGATGAGCCATCTTTGGTATTGGTATTTACATGAAA
1 TGATTAGCCATCTTTGGTATTGGTATTTACATGAAA
50528155 TGATTAGCCATCTTTGGTATTGGTATTTACATGAAA
1 TGATTAGCCATCTTTGGTATTGGTATTTACATGAAA
50528191 TGATTA
1 TGATTA
50528197 ACTAACATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (36 bp):
TGATTAGCCATCTTTGGTATTGGTATTTACATGAAA
Found at i:50529995 original size:46 final size:46
Alignment explanation
Indices: 50529928--50530203 Score: 507
Period size: 46 Copynumber: 6.0 Consensus size: 46
50529918 CATGGCAAAG
50529928 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
50529974 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
50530020 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
50530066 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
50530112 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* * *
50530158 TGTGAAAAGTAGGTATGGTATTTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
50530204 GATAGGAATG
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 224 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:50537233 original size:193 final size:193
Alignment explanation
Indices: 50536904--50537288 Score: 707
Period size: 193 Copynumber: 2.0 Consensus size: 193
50536894 CACGGCCCTA
* *
50536904 TCCCAGCCTGTGTTTGTGCCCGTGTAACTCTTTAACTTGGGTCACAAGGCCAAGCCACTCACCCG
1 TCCCAGCCTGTGTCTGTGCCCATGTAACTCTTTAACTTGGGTCACAAGGCCAAGCCACTCACCCG
*
50536969 TGTACCAGGCCATGTATCTTTCGAAATGCAACCTTTAAAAACCTACCTAAGACATATGGCCGTGT
66 TGTACCAGGCCATGTATCTTTCGAAATGCAACCTTTAAAAACCTACCTAAGACACATGGCCGTGT
*
50537034 TGCCTGGTCGCCCGTGTCTCTGACCTTGTGAATGAAAAACAAGACATTTCCCAACCCTTTTTG
131 TGCCTGGTCGCCCGTGTCTCTGACCTTGTGAATGAAAAACAAAACATTTCCCAACCCTTTTTG
*
50537097 TCCCAGCCTGTGTCTGTGCCCATGTAACTCTTTAACTTGGGTCACAAGGCCAAGCCACTCACTCG
1 TCCCAGCCTGTGTCTGTGCCCATGTAACTCTTTAACTTGGGTCACAAGGCCAAGCCACTCACCCG
* *
50537162 TGTGCCAGGCCATGTATCTTTCGAAATGCAACCTTTAAAAACCTACCTAATACACATGGCCGTGT
66 TGTACCAGGCCATGTATCTTTCGAAATGCAACCTTTAAAAACCTACCTAAGACACATGGCCGTGT
50537227 TGCCTGGTCGCCCGTGTCTCTGACCTTGTGAATGAAAAACAAAACATTTCCCAACCCTTTTT
131 TGCCTGGTCGCCCGTGTCTCTGACCTTGTGAATGAAAAACAAAACATTTCCCAACCCTTTTT
50537289 CTCACCCATT
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
193 185 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (193 bp):
TCCCAGCCTGTGTCTGTGCCCATGTAACTCTTTAACTTGGGTCACAAGGCCAAGCCACTCACCCG
TGTACCAGGCCATGTATCTTTCGAAATGCAACCTTTAAAAACCTACCTAAGACACATGGCCGTGT
TGCCTGGTCGCCCGTGTCTCTGACCTTGTGAATGAAAAACAAAACATTTCCCAACCCTTTTTG
Found at i:50539212 original size:34 final size:34
Alignment explanation
Indices: 50539169--50539238 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
50539159 CTTAGAATAA
50539169 TATCGGATACACGAGAATCTCACACATTGTGTAC
1 TATCGGATACACGAGAATCTCACACATTGTGTAC
50539203 TATCGGATACACGAGAATCTCACACATTGTGTAC
1 TATCGGATACACGAGAATCTCACACATTGTGTAC
50539237 TA
1 TA
50539239 ACATATGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (34 bp):
TATCGGATACACGAGAATCTCACACATTGTGTAC
Found at i:50548427 original size:13 final size:13
Alignment explanation
Indices: 50548409--50548438 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50548399 TCCAGCAACT
50548409 ATGAATTTATTTC
1 ATGAATTTATTTC
*
50548422 ATGAATTTATTTG
1 ATGAATTTATTTC
50548435 ATGA
1 ATGA
50548439 TGATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:50548586 original size:50 final size:50
Alignment explanation
Indices: 50548528--50548770 Score: 301
Period size: 50 Copynumber: 4.8 Consensus size: 50
50548518 ATTTGGGTAA
50548528 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
*
50548578 AGAGGTCCCATGTAAGACCATGTCTGGGACAT-AGCATTGGCCCCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGA-CATTGGCACCGAGATG
* * * * * *
50548628 ATAGGTCCCATGTAAGACTATTTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
** * *
50548678 AGAGGTCCCCCGTAAGACCATGTCTGGGACAT-AGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGA-CATTGGCACCGAGATG
*** * *
50548728 AGAACACCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
50548771 TGTTATTATC
Statistics
Matches: 162, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 130 0.80
51 31 0.19
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
Found at i:50548703 original size:100 final size:101
Alignment explanation
Indices: 50548530--50548770 Score: 340
Period size: 100 Copynumber: 2.4 Consensus size: 101
50548520 TTGGGTAAAG
* *
50548530 AGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATGAGAGGTCCCATGTAAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGA
* * * *
50548595 CCATGTCTGGGACATAGCATTGGCCCCGAGATGA-T
66 CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
* * * * *
50548630 AGGTCCCATGTAAGACTATTTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGA
50548695 CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
66 CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
*** *
50548731 ACACCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
50548771 TGTTATTATC
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
100 89 0.73
101 33 0.27
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (101 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAAGA
CCATGTCTGGGACATAGCATGGGCACCGACATGAGA
Found at i:50551200 original size:16 final size:16
Alignment explanation
Indices: 50551170--50551199 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50551160 AATGTTGGCA
50551170 ATGTAAAATAATTTTC
1 ATGTAAAATAATTTTC
50551186 ATGT-AAATAATTTT
1 ATGTAAAATAATTTT
50551200 TGTAATGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (16 bp):
ATGTAAAATAATTTTC
Found at i:50555523 original size:21 final size:21
Alignment explanation
Indices: 50555499--50555548 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
50555489 CTTGAACTCC
*
50555499 AAGGTTCAGGATTTGAA-GTTT
1 AAGGTTCAAGATTT-AAGGTTT
50555520 AAGGTTCAAGATTTAAGGTTT
1 AAGGTTCAAGATTTAAGGTTT
50555541 AAGGTTCA
1 AAGGTTCA
50555549 TGGTTCAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (21 bp):
AAGGTTCAAGATTTAAGGTTT
Found at i:50555536 original size:14 final size:13
Alignment explanation
Indices: 50555514--50555589 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 13
50555504 TCAGGATTTG
50555514 AAGTTTAAGGTTC
1 AAGTTTAAGGTTC
*
50555527 AAGATTTAAGGTTT
1 AAG-TTTAAGGTTC
* *
50555541 AAGGTTCATGGTTC
1 AA-GTTTAAGGTTC
*
50555555 AAGCATTTGA-GTTC
1 AAG--TTTAAGGTTC
50555569 AAGTTTAAGGATTC
1 AAGTTTAAGG-TTC
50555583 AAGTTTA
1 AAGTTTA
50555590 CGAGTTATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
12 4 0.08
13 5 0.10
14 37 0.76
15 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (13 bp):
AAGTTTAAGGTTC
Found at i:50555583 original size:28 final size:27
Alignment explanation
Indices: 50555514--50555589 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 27
50555504 TCAGGATTTG
*
50555514 AAGTTTAAGGTTCAAGATTTAAGGTTT
1 AAGTTTAAGGTTCAAGATTTAAGGTTC
* * *
50555541 AAGGTTCATGGTTCAAGCATTTGA-GTTC
1 AA-GTTTAAGGTTCAAG-ATTTAAGGTTC
50555569 AAGTTTAAGGATTCAAG-TTTA
1 AAGTTTAAGG-TTCAAGATTTA
50555590 CGAGTTATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
26 3 0.08
27 8 0.21
28 23 0.59
29 5 0.13
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (27 bp):
AAGTTTAAGGTTCAAGATTTAAGGTTC
Found at i:50569861 original size:46 final size:44
Alignment explanation
Indices: 50569808--50570098 Score: 202
Period size: 46 Copynumber: 6.7 Consensus size: 44
50569798 ATTATACATG
* * * *
50569808 TCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTGCAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAG-ATAG-AAA
* * *
50569854 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
* * **
50569898 TCCTATCTCCTTGAGATTACAGTGGAGCAGA-TTAA-A-AG--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
* * * *** * ** * *
50569937 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTA-ACAG--G
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
** * * *
50569978 TCTTATCTCATTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAG-ATAG-AAA
* * *
50570024 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
* *
50570068 TCCTATCTCCTTGAGATTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGA
50570099 TTAAAGGATC
Statistics
Matches: 191, Mismatches: 47, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
39 24 0.13
40 2 0.01
41 31 0.16
42 1 0.01
43 4 0.02
44 59 0.31
45 6 0.03
46 64 0.34
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGACCAAAGATAGAAA
Found at i:50569957 original size:39 final size:41
Alignment explanation
Indices: 50569808--50570315 Score: 226
Period size: 44 Copynumber: 11.8 Consensus size: 41
50569798 ATTATACATG
* * * * *
50569808 TCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTGCAAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATC-AA-AA-T--AGA
* *
50569854 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAA-ATAG--A
* *
50569898 TCCTATCTC-CTTGAGATTACAGTGGAGCAGAT-TAAA-AGA
1 TCTTATCTCTC-TGAGATTACAGTGGAGCAGATCAAAATAGA
* * *** ** * *
50569937 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAGG
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAAATAGA
*
50569978 TCTTATCTCAT-TGAGATTACAGTGGAGCAGACCGAAGAATTGCAGA
1 TCTTATCTC-TCTGAGATTACAGTGGAGCAGATC-AA-AA-T--AGA
* *
50570024 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAA-ATAG--A
* * *
50570068 TCCTATCTC-CTTGAGATTACAGTGGAGCAGAT-TAAA-GGA
1 TCTTATCTCTC-TGAGATTACAGTGGAGCAGATCAAAATAGA
* * * *** ** *
50570107 TCATATCTCTCTGAGGTTACAGTAGAATGGATC-GTATCAGG
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAAAT-AGA
* * *
50570148 TCTTATCTCCCTGAGATTACAGTGGAGAAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGATC-AA-AA-T--AGA
* * * * **
50570194 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAA
1 TCTTATCTCTCTGAGATTACAGTGGAGCAGA-TCAAAATAG--A
* * *
50570238 TCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCTCTGAGA-TTACAGTGGAGCAGATCAAAAT--A-GA
* *
50570282 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCA
1 TCTTATCTCTCTGAGA-TTACAGTGGAGCAGATCA
50570316 CATCAGATTG
Statistics
Matches: 354, Mismatches: 74, Indels: 70
0.71 0.15 0.14
Matches are distributed among these distances:
39 51 0.14
40 4 0.01
41 56 0.16
42 8 0.02
43 13 0.04
44 119 0.34
45 8 0.02
46 95 0.27
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (41 bp):
TCTTATCTCTCTGAGATTACAGTGGAGCAGATCAAAATAGA
Found at i:50570002 original size:80 final size:80
Alignment explanation
Indices: 50569901--50570174 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
50569891 ATAGTAATCC
50569901 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
1 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
50569966 GATCGTAACAGGTCT
66 GATCGTAACAGGTCT
* ** * *
50569981 TATCTCATTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTACAG
1 TATCTCCTTGAGATTACAGTGGAGCAGA--TTA-AA----AGATCTTATCTCTCTGAGGTTACAG
** *** ** * * *
50570046 CGGAGCAGATCAAAGATAGTAATCC
59 TAGAATGGATCGTA-ACAG--GTCT
* *
50570071 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAGGATCATATCTCTCTGAGGTTACAGTAGAATG
1 TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
*
50570136 GATCGTATCAGGTCT
66 GATCGTAACAGGTCT
*
50570151 TATCTCCCTGAGATTACAGTGGAG
1 TATCTCCTTGAGATTACAGTGGAG
50570175 AAGACCGAAG
Statistics
Matches: 150, Mismatches: 34, Indels: 20
0.74 0.17 0.10
Matches are distributed among these distances:
80 52 0.35
82 3 0.02
83 30 0.20
87 32 0.21
88 4 0.03
90 29 0.19
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (80 bp):
TATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGATCTTATCTCTCTGAGGTTACAGTAGAATG
GATCGTAACAGGTCT
Found at i:50570089 original size:170 final size:170
Alignment explanation
Indices: 50569807--50570307 Score: 790
Period size: 170 Copynumber: 2.9 Consensus size: 170
50569797 CATTATACAT
* * *
50569807 GTCTTATCTCCCTAAGATTACAGTGGAACAGACCGAAGAATTGCAAATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
50569872 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
50569937 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
131 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
**
50569977 GTCTTATCTCATTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
*
50570042 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAGGA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
* *
50570107 TCATATCTCTCTGAGGTTACAGTAGAATGGATCGTATCAG
131 TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
*
50570147 GTCTTATCTCCCTGAGATTACAGTGGAGAAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
* ** * *
50570212 ACAGCGGAGTAGATTGAAGCTAGTAATCCTATCT-CTCTGA-AGTTACAGTGGAGCGGATTAAAA
66 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCT-TGAGA-TTACAGTGGAGCAGATT---A
*
50570275 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
126 -AAA-GATCTTATCTCTCTGAGGTTACAGTAGA
50570308 GTAGATCACA
Statistics
Matches: 305, Mismatches: 19, Indels: 9
0.92 0.06 0.03
Matches are distributed among these distances:
169 3 0.01
170 273 0.90
173 1 0.00
174 2 0.01
175 26 0.09
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (170 bp):
GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAGTGGAGCAGATTAAAAGA
TCTTATCTCTCTGAGGTTACAGTAGAATGGATCGTAACAG
Found at i:50570407 original size:44 final size:44
Alignment explanation
Indices: 50570320--50570412 Score: 109
Period size: 44 Copynumber: 2.1 Consensus size: 44
50570310 AGATCACATC
* * *
50570320 AGATTGAAGCCAGAGATCTTATCTCCCTCAGATTACAGTGGAGT
1 AGATTGAAGCCAGAGATCCTATCTCCCTAAGATTACAGCGGAGT
* *
50570364 AGATTGAAGCTAGTA-ATCCTATCTCCCTGAAG-TTGCAGCGGAGT
1 AGATTGAAGCCAG-AGATCCTATCTCCCT-AAGATTACAGCGGAGT
50570408 AGATT
1 AGATT
50570413 AAAACACAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 39 0.93
45 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTGAAGCCAGAGATCCTATCTCCCTAAGATTACAGCGGAGT
Found at i:50571198 original size:21 final size:22
Alignment explanation
Indices: 50571163--50571207 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
50571153 TTGAGTACTC
*
50571163 TTCTTGGT-TTTTTTTATTTTAT
1 TTCTTGGTCTTTTTTT-GTTTAT
50571185 TTCTT-GTCTTTTTTTGTTTAT
1 TTCTTGGTCTTTTTTTGTTTAT
50571206 TT
1 TT
50571208 ATATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.07, C:0.07, G:0.09, T:0.78
Consensus pattern (22 bp):
TTCTTGGTCTTTTTTTGTTTAT
Found at i:50571974 original size:3 final size:3
Alignment explanation
Indices: 50571949--50572033 Score: 75
Period size: 3 Copynumber: 28.3 Consensus size: 3
50571939 CTTAGCATTC
* * *
50571949 TTA TTA TTT TTA ATA TTA CTA TTA TTA TTA TTA TTA TTA TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * * *
50571994 TTG TTA TTA TTA TTA ATA TT- TATG TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
50572034 ATTTCTACTT
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.03
3 62 0.94
4 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:50572414 original size:11 final size:11
Alignment explanation
Indices: 50572400--50572432 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
50572390 TTATATATTT
50572400 TATAATTTTCA
1 TATAATTTTCA
50572411 TAT-ATTTTCA
1 TATAATTTTCA
*
50572421 TATATTTTTCA
1 TATAATTTTCA
50572432 T
1 T
50572433 TCATGAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (11 bp):
TATAATTTTCA
Found at i:50572417 original size:10 final size:10
Alignment explanation
Indices: 50572387--50572428 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
50572377 GCACATACAT
*
50572387 TTTTTATATA
1 TTTTCATATA
50572397 TTTT-ATA-A
1 TTTTCATATA
50572405 TTTTCATATA
1 TTTTCATATA
50572415 TTTTCATATA
1 TTTTCATATA
50572425 TTTT
1 TTTT
50572429 TCATTCATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 5 0.17
9 6 0.20
10 19 0.63
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTCATATA
Found at i:50572848 original size:109 final size:109
Alignment explanation
Indices: 50572605--50572927 Score: 429
Period size: 109 Copynumber: 3.0 Consensus size: 109
50572595 TCAAAAAAGG
* * * * *
50572605 AAAATATTTCAAATTGAGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGTT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * * *
50572670 GGGTGTCGATTTTTTCTCGTTCGACCAAATAGCTAAATATCATTTT
65 GGGTGTTGA-TTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
** *
50572716 AGGAATTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
50572781 GGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
66 GGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
* * *
50572825 AAAAATTTCAAAATAAAGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * *
50572889 GGT-TTCGA--TTTCTCGTTTAACCAAATTGCCAAATATCCT
66 GGTGTT-GATTTTTCTCGTTCAACCAAATAGCTAAATATCCT
50572928 CTTGAATTTT
Statistics
Matches: 190, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
106 28 0.15
107 2 0.01
108 23 0.12
109 73 0.38
110 62 0.33
111 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTC
Found at i:50581479 original size:58 final size:58
Alignment explanation
Indices: 50581389--50581503 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
50581379 TAACGACAAG
*
50581389 ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATCTTGTTTTGGGACACCA
1 ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACCA
* *
50581447 ACAAAAGTTGTTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACC
1 ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACC
50581504 CAATTGAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (58 bp):
ACAAAAGTGGCTAGCTTTTTGGTTTGGTTTTAGATGGTAATATTGTTTTGGGACACCA
Found at i:50582509 original size:4 final size:4
Alignment explanation
Indices: 50582507--50582536 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
50582497 ACCAAAAAAA
*
50582507 AAAG AAAG AAAG AAAG AAAA AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
50582537 TTATTTTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:50582524 original size:12 final size:12
Alignment explanation
Indices: 50582500--50582536 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
50582490 AAATATAACC
50582500 AAAAAAA-AAAG
1 AAAAAAAGAAAG
*
50582511 AAAGAAAGAAAG
1 AAAAAAAGAAAG
50582523 AAAAAAAGAAAG
1 AAAAAAAGAAAG
50582535 AA
1 AA
50582537 TTATTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:50585706 original size:44 final size:44
Alignment explanation
Indices: 50585632--50585730 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 44
50585622 TGATCTACTA
* * * **
50585632 CAACTTCAGGGATATAGGATTAGTAGCTTCAGTCTG-CTCCACTG
1 CAACTTCAGGGAGAAAAGATTAGTAGCTTCAACCTGTC-CCACTG
*
50585676 CAACTTCAGGGAGAAAAGACTTA-TATCTTCAACCTGTCCCACTG
1 CAACTTCAGGGAGAAAAGA-TTAGTAGCTTCAACCTGTCCCACTG
50585720 CAACTTCAGGG
1 CAACTTCAGGG
50585731 GGATAAGGTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (44 bp):
CAACTTCAGGGAGAAAAGATTAGTAGCTTCAACCTGTCCCACTG
Found at i:50598234 original size:21 final size:21
Alignment explanation
Indices: 50598208--50598251 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
50598198 ATAATAATAC
50598208 TAATAATAAT-ATAAAGAACAA
1 TAATAATAATGATAAAG-ACAA
*
50598229 TAATAATAATGATAATGACAA
1 TAATAATAATGATAAAGACAA
50598250 TA
1 TA
50598252 TAACCGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (21 bp):
TAATAATAATGATAAAGACAA
Found at i:50599873 original size:2 final size:2
Alignment explanation
Indices: 50599866--50599907 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
50599856 TTACATTGTT
50599866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50599908 CTTTTACTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50601817 original size:39 final size:39
Alignment explanation
Indices: 50601748--50601822 Score: 100
Period size: 38 Copynumber: 1.9 Consensus size: 39
50601738 AAATAAGAAT
*
50601748 AAATAACAATAAAAACAATTTTAAATATATA-ATATAAA
1 AAATAACAATAAAAACAATTTTAAAAATATATATATAAA
*
50601786 AAATAAC-ATATAAAACAGTTTTAAAAAATATATATAT
1 AAATAACAATA-AAAACAATTTT-AAAAATATATATAT
50601823 GCAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 3 0.09
38 17 0.53
39 8 0.25
40 4 0.12
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (39 bp):
AAATAACAATAAAAACAATTTTAAAAATATATATATAAA
Found at i:50603626 original size:9 final size:9
Alignment explanation
Indices: 50603576--50603627 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
50603566 CTGTGCTTCA
*
50603576 TAAAAAATA
1 TAAAAAATT
*
50603585 AAAAAATATT
1 TAAAAA-ATT
*
50603595 TAAAATATT
1 TAAAAAATT
*
50603604 TAAAAAAAT
1 TAAAAAATT
*
50603613 CAAAAAATT
1 TAAAAAATT
50603622 TAAAAA
1 TAAAAA
50603628 TTGTTCATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAATT
Found at i:50605230 original size:16 final size:15
Alignment explanation
Indices: 50605202--50605232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50605192 TGACTATAAA
50605202 GATGAAGAAAATTTT
1 GATGAAGAAAATTTT
*
50605217 GATGAAGAAAAATTT
1 GATGAAGAAAATTTT
50605232 G
1 G
50605233 TAGATATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.29
Consensus pattern (15 bp):
GATGAAGAAAATTTT
Found at i:50616667 original size:15 final size:14
Alignment explanation
Indices: 50616646--50616681 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
50616636 ATAATCCTTA
*
50616646 ATAATTATCTTAAT
1 ATAATTATCCTAAT
50616660 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
50616675 ATAATTA
1 ATAATTA
50616682 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:50618358 original size:25 final size:25
Alignment explanation
Indices: 50618322--50618394 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
50618312 ATTAATATCC
*
50618322 AAAT-AAGTAATAAATAATAAAATA
1 AAATAAAGTAATAAATAATAAAAGA
50618346 AAATAAAGTAATAAATACAGT-AAAGA
1 AAATAAAGTAATAAATA-A-TAAAAGA
50618372 AAATAAA-TAATAAATAAATAAAA
1 AAATAAAGTAATAAAT-AATAAAA
50618395 AAATGGGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
24 5 0.12
25 24 0.56
26 13 0.30
27 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.22
Consensus pattern (25 bp):
AAATAAAGTAATAAATAATAAAAGA
Found at i:50619630 original size:27 final size:26
Alignment explanation
Indices: 50619600--50619650 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
50619590 ATGAAATTCT
*
50619600 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
50619627 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
50619651 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:50619838 original size:27 final size:26
Alignment explanation
Indices: 50619808--50619859 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
50619798 GAATAAAAAT
50619808 TTTA-AAACATAGAATAAAATTTTATAA
1 TTTACAAA-ATAGAAT-AAATTTTATAA
* *
50619835 TTTACAAATTATAATAAATTTTATA
1 TTTACAAAATAGAATAAATTTTATA
50619860 CGCATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 10 0.45
27 9 0.41
28 3 0.14
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
TTTACAAAATAGAATAAATTTTATAA
Found at i:50620052 original size:21 final size:20
Alignment explanation
Indices: 50620005--50620052 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
50619995 AATCTTAAAC
* *
50620005 AAAATTAAAATAATAGTATAT
1 AAAA-TAAAATAATAGAAAAT
50620026 AAAATAAAATAAATAGAAAAT
1 AAAATAAAAT-AATAGAAAAT
*
50620047 ATAATA
1 AAAATA
50620053 GACTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATAAAATAATAGAAAAT
Found at i:50621745 original size:44 final size:44
Alignment explanation
Indices: 50621680--50622380 Score: 196
Period size: 44 Copynumber: 15.1 Consensus size: 44
50621670 GATCTACTCT
*
50621680 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * *
50621724 ACTGTAATCTCAGGGAAATAAGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTT-AATCCGCTCC
* * * ** *
50621768 GCTGTAA-CTCAGGGAGATAAGATTTCTGGCTTGAATCTGGTGCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTT-TATCT--T--AATCCGCTCC
* * * *
50621821 ACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCC
1 ACTGTAATCTCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
** * * *
50621865 ACTGTAATCTCAGGGAGATGGGAT--TACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTT-AATCCGCTCC
* * * * *
50621909 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAACCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTATCTTAATCCG--CT-C-C
* *
50621962 TACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * * *
50622007 ACTGTAATCTCAGGGAGATAGGAT--TAATAGCTTCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTTAATCCGCTCC
* * * * *
50622050 GCTGTAATTTCAGGGAGATAAGATTTCTGGCTTCAGTC-TGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTA-TCTTAATCCG--CT-C-C
* * *
50622103 TACTGTAA-CTTCAGAGAGATAAGATACTTTATTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * * * *
50622148 ACTGTAATATCAGGGAGATAGGAT--TAATAGCTTTATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTTAATCCGCTCC
* * * * * * *
50622191 GCTGTAATTTTAGGGAGATAAGATTTCTGGCTTCAGTC-TGATGCGATTTACTCT
1 ACTGTAATCTCAGGGAGATAAGA--TC---CTTTA-TCTTAATCCG-----CTCC
* * *
50622245 ACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
* * * * * *
50622289 ACTGTAATATCAGGGAGATAGGAT--TAATAGCTTCATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCT-TTATCTTAATCCGCTCC
* * * *
50622332 ACTGTAATCTCAGGGAGATAATAT-CTCTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCCTTTATCTT-AATCCGCTCC
50622376 ACTGT
1 ACTGT
50622381 GGCTTAAATC
Statistics
Matches: 478, Mismatches: 111, Indels: 136
0.66 0.15 0.19
Matches are distributed among these distances:
42 5 0.01
43 126 0.26
44 169 0.35
45 7 0.01
46 4 0.01
47 4 0.01
48 5 0.01
49 42 0.09
50 11 0.02
51 5 0.01
52 10 0.02
53 17 0.04
54 73 0.15
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATCCTTTATCTTAATCCGCTCC
Found at i:50622009 original size:283 final size:282
Alignment explanation
Indices: 50621661--50622371 Score: 1145
Period size: 283 Copynumber: 2.5 Consensus size: 282
50621651 GGGAGATAAG
* *
50621661 ACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * *
50621726 TGTAATCTCAGGGAAATAAGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGA
66 TGTAATCTCAGGGAGATAGGATTAATAGCTTC-ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* * * *
50621790 TTTCTGGCTTGAATCTGGTGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTT
130 TTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTT
* * *
50621855 AATCCACTCCACTGTAATCTCAGGGAGATGGGATTACTAGCTTCAATCTGCTCCACTGTAATCTC
195 AATCCACTCCACTGTAATATCAGGGAGATAGGATTAATAGCTT-AATCTGCTCCACTGTAATCTC
50621920 AGGGAGATAAGATTTCTGGCTTCA
259 AGGGAGATAAGATTTCTGGCTTCA
50621944 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
*
50622009 TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATTTCAGGGAGATAAGAT
66 TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
*
50622074 TTCTGGCTTCAGTCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTA
131 TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTA
* * * * *
50622139 ATCCGCTCCACTGTAATATCAGGGAGATAGGATTAATAGCTTTATCTGCTCCGCTGTAATTTTAG
196 ATCCACTCCACTGTAATATCAGGGAGATAGGATTAATAGCTTAATCTGCTCCACTGTAATCTCAG
50622204 GGAGATAAGATTTCTGGCTTCA
261 GGAGATAAGATTTCTGGCTTCA
** * *
50622226 GTCTGATGCGATTTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCAC
1 ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
* * *
50622291 TGTAATATCAGGGAGATAGGATTAATAGCTTCATCTGCTCCACTGTAATCTCAGGGAGATAATAT
66 TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* *
50622356 CTCTAGCTTCAATCTG
131 TTCTGGCTTCAATCTG
50622372 CTCCACTGTG
Statistics
Matches: 397, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
282 192 0.48
283 205 0.52
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (282 bp):
ACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
TGTAATCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
TTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTA
ATCCACTCCACTGTAATATCAGGGAGATAGGATTAATAGCTTAATCTGCTCCACTGTAATCTCAG
GGAGATAAGATTTCTGGCTTCA
Found at i:50622112 original size:141 final size:141
Alignment explanation
Indices: 50621666--50622371 Score: 1144
Period size: 141 Copynumber: 5.0 Consensus size: 141
50621656 ATAAGACCTA
*
50621666 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * *
50621731 TCTCAGGGAAATAAGATTACTAGCTTCAATCTGCTCCGCTGTAA-CTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTAATAGCTTC-ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
*
50621795 GGCTTGAATCTG
130 GGCTTCAATCTG
* * *
50621807 GTGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * *
50621872 TCTCAGGGAGATGGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCT
66 TCTCAGGGAGATAGGATTAATAGCTTC-ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCT
*
50621937 GGCTTCAACCTG
130 GGCTTCAATCTG
50621949 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
*
50622014 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATTTCAGGGAGATAAGATTTCTG
66 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
*
50622079 GCTTCAGTCTG
131 GCTTCAATCTG
*
50622090 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATACTTTATTTTAATCCGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * * *
50622155 TATCAGGGAGATAGGATTAATAGCTTTATCTGCTCCGCTGTAATTTTAGGGAGATAAGATTTCTG
66 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
*
50622220 GCTTCAGTCTG
131 GCTTCAATCTG
* *
50622231 ATGCGATTTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAA
1 ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
* * * * *
50622296 TATCAGGGAGATAGGATTAATAGCTTCATCTGCTCCACTGTAATCTCAGGGAGATAATATCTCTA
66 TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
50622361 GCTTCAATCTG
131 GCTTCAATCTG
50622372 CTCCACTGTG
Statistics
Matches: 530, Mismatches: 34, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
141 413 0.78
142 117 0.22
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (141 bp):
ATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA
TCTCAGGGAGATAGGATTAATAGCTTCATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTG
GCTTCAATCTG
Found at i:50631045 original size:19 final size:19
Alignment explanation
Indices: 50631019--50631064 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
50631009 TTAATAATCT
* *
50631019 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
50631037 TGCAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
50631057 TGAATGCA
1 TGAATGCA
50631065 AAAAAGAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:50635036 original size:12 final size:12
Alignment explanation
Indices: 50635019--50635043 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50635009 TAAATAAAAT
50635019 AAAATACAATAG
1 AAAATACAATAG
50635031 AAAATACAATAG
1 AAAATACAATAG
50635043 A
1 A
50635044 CTTAAAATAT
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATACAATAG
Found at i:50637496 original size:3 final size:3
Alignment explanation
Indices: 50637490--50637521 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50637480 AATAATAATA
50637490 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
50637522 AATCAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:50637573 original size:15 final size:13
Alignment explanation
Indices: 50637545--50637578 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
50637535 AACCGATAAT
50637545 AATAAAATAAAAA
1 AATAAAATAAAAA
50637558 AATAAGAATAAAAAA
1 AATAA-AAT-AAAAA
50637573 AATAAA
1 AATAAA
50637579 CTTTAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 4 0.21
15 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
AATAAAATAAAAA
Found at i:50639109 original size:45 final size:43
Alignment explanation
Indices: 50639057--50639202 Score: 127
Period size: 45 Copynumber: 3.3 Consensus size: 43
50639047 TAAATCTATA
50639057 CCACTGCAACTTCAAGGAAATGAGATATGCTATCTTCAATCTGCT
1 CCACTGCAACTTCAAGGAAAT-AGAT-TGCTATCTTCAATCTGCT
*
50639102 CCACTGCAAGTTC-AGGAAGATACGACTTG-TATCTTCAATCTGAC-
1 CCACTGCAACTTCAAGGAA-ATA-GA-TTGCTATCTTCAATCTG-CT
* ** * *
50639146 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCAGTCTACT
1 CCACTGCAACTTCAAGGAAAT-AGA-TTGCTATCTTCAATCTGCT
* *
50639191 CTACTACAACTT
1 CCACTGCAACTT
50639203 TAGAGAGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 39 0.47
45 43 0.52
46 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
CCACTGCAACTTCAAGGAAATAGATTGCTATCTTCAATCTGCT
Found at i:50639137 original size:44 final size:43
Alignment explanation
Indices: 50639057--50639795 Score: 182
Period size: 44 Copynumber: 16.6 Consensus size: 43
50639047 TAAATCTATA
*
50639057 CCACTGCAACTTCAAGGAA-ATGAGA-TATGCTATCTTCAATCTGC
1 CCACTGCAACTTC-AGGAAGATAAGACT-TG-TATCTTCAATCTGC
* *
50639101 TCCACTGCAAGTTCAGGAAGATACGACTTGTATCTTCAATCTGAC
1 -CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTG-C
** * * *
50639146 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCAGTCTAC
1 CCACTGCAACTTCAGGAAGATAAGACTTG-TATCTTCAATCTGC
* * * * *
50639190 TCTACTACAACTTTA-GAGAGATATGACTTGTAAT-TACAATCTGC
1 -CCACTGCAACTTCAGGA-AGATAAGACTTGT-ATCTTCAATCTGC
* *
50639234 CCTACTGCAACTTCA-GAGGGATAAGA-TTCG---CTAT-GATCTGC
1 CC-ACTGCAACTTCAGGA-AGATAAGACTT-GTATCT-TCAATCTGC
* * * *
50639275 TCTACTGCAACTTTA-GAGAGATAAGA-TCCG---CTAT-GATCTGC
1 -CCACTGCAACTTCAGGA-AGATAAGACT-TGTATCT-TCAATCTGC
* * *
50639316 TCTAC-GACAACTTCA-GATAGATAAGATCTGTGATTTATAGCTTTAATCTGTT
1 -CCACTG-CAACTTCAGGA-AGATAAGA-CT-TG---TAT--CTTCAATCTG-C
* * *
50639368 CCACTGTAACTTCAAGGAA-ATAAGATTTGCTATCTTCAGTCTGC
1 CCACTGCAACTTC-AGGAAGATAAGACTTG-TATCTTCAATCTGC
* * * * *
50639412 TCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTGTT
1 -CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTG-C
* * * * *
50639457 CCATTGCAACTTCAGGGAGATAAG-GTT-T-GCTAT-GATCTGC
1 CCACTGCAACTTCAGGAAGATAAGACTTGTATCT-TCAATCTGC
* * * * *
50639497 TCTACTGAAACTTCA-GAGAGATAAAATCTACAATTTATATCTTTAATCTGC
1 -CCACTGCAACTTCAGGA-AGAT--AA--GAC---TTGTATCTTCAATCTGC
* * * * * *
50639548 TCCAGTGCAACTTTAGGAAAATAAGATTTGCTATCTTCAGTCTTC
1 -CCACTGCAACTTCAGGAAGATAAGACTTG-TATCTTCAATCTGC
** * * *
50639593 TTTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAA-CTTGTC
1 -CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATC-TG-C
* * ** * * * *
50639638 CCATTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTAC
1 CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGC
* * * *
50639681 TCTACTACAACTTCA-GAGAGATAAGATTTGCTATCTTCAGTCTGC
1 -CCACTGCAACTTCAGGA-AGATAAGACTTG-TATCTTCAATCTGC
* * * **
50639726 TCCACTGTAATTTCAAGG-AGATAAGACTAGTGGCTTCAATCTGC
1 -CCACTGCAACTTC-AGGAAGATAAGACTTGTATCTTCAATCTGC
* *
50639770 TCCACTGCAACTTTAGGGAGATAAGA
1 -CCACTGCAACTTCAGGAAGATAAGA
50639796 TTCACCATGA
Statistics
Matches: 518, Mismatches: 119, Indels: 115
0.69 0.16 0.15
Matches are distributed among these distances:
40 2 0.00
41 84 0.16
42 3 0.01
43 15 0.03
44 201 0.39
45 145 0.28
46 2 0.00
47 5 0.01
49 6 0.01
50 4 0.01
51 44 0.08
52 5 0.01
53 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (43 bp):
CCACTGCAACTTCAGGAAGATAAGACTTGTATCTTCAATCTGC
Found at i:50639249 original size:89 final size:88
Alignment explanation
Indices: 50639057--50639297 Score: 260
Period size: 89 Copynumber: 2.8 Consensus size: 88
50639047 TAAATCTATA
* ** * * * * *
50639057 CCACTGCAACTTCAAGGAAATGAGATATGCTATCTTCAATCTGCTCCACTGCAAGTTCAG-GAAG
1 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTC-ATCTGCTCTACTGCAACTTTAGAG-AG
*
50639121 ATACGACTTGTATCTTCAATCTGAC
64 ATACGACTTGTATCTACAATCTGAC
* *
50639146 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCAGTCTACTCTACTACAACTTTAGAGAGA
1 CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCA-TCTGCTCTACTGCAACTTTAGAGAGA
*
50639211 TATGACTTGTAAT-TACAATCTG-C
65 TACGACTTGT-ATCTACAATCTGAC
* * *
50639234 CCTACTGCAACTTCAGAGGGATAAGATTCGCTA---TGATCTGCTCTACTGCAACTTTAGAGAGA
1 CC-ACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCATCTGCTCTACTGCAACTTTAGAGAGA
50639296 TA
65 TA
50639298 AGATCCGCTA
Statistics
Matches: 131, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
85 26 0.20
86 2 0.02
88 4 0.03
89 96 0.73
90 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (88 bp):
CCACTGCAACTTCAGGGGGATAAGATTTGCTATCTTCATCTGCTCTACTGCAACTTTAGAGAGAT
ACGACTTGTATCTACAATCTGAC
Found at i:50639280 original size:41 final size:41
Alignment explanation
Indices: 50639228--50639343 Score: 171
Period size: 41 Copynumber: 2.8 Consensus size: 41
50639218 TGTAATTACA
* * *
50639228 ATCTGCCCTACTGCAACTTCAGAGGGATAAGATTCGCTATG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGCTATG
*
50639269 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCCGCTATG
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGCTATG
*
50639310 ATCTGCTCTAC-GACAACTTCAGATAGATAAGATC
1 ATCTGCTCTACTG-CAACTTCAGAGAGATAAGATC
50639344 TGTGATTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (41 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGCTATG
Found at i:50639584 original size:181 final size:182
Alignment explanation
Indices: 50639280--50639795 Score: 568
Period size: 181 Copynumber: 2.9 Consensus size: 182
50639270 TCTGCTCTAC
* * * ** * *
50639280 TGCAACTTTAGAGAGATAAGATCCGCTATGATCTGCTCTAC-GACAACTTCAGATAGATAAGATC
1 TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAAATC
*** * *
50639344 TGTGATTTATAGCTTTAATCTGTTCCACTGTAACTTCAAGGAAATAAGATTTGCTATCTTCAGTC
66 TACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTC
* * *
50639409 TGCTCCACTGCATCTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGTCCCAT
50639461 TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGA-AACTTCAGAGAGATAAAATC
1 TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAAATC
* * *
50639525 TACAATTTATATCTTTAATCTGCTCCAGTGCAACTT-TAGGAAAATAAGATTTGCTATCTTCAGT
66 TACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGG-AAATAAGATTTGCTATCTTCAGT
* ** *
50639589 CTTCTTTACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACTTGTCCCAT
130 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGTCCCAT
* * * *
50639642 TGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACT-ACAACTTCAGAGAGATAAG
1 TGCAACTTCAGGGAGATAAGG-TT-T-GCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAA
* * * * * * * * * **
50639706 ATTTGC----TAT--CTTCAGTCTGCTCCACTGTAATTTCAAGGAGATAAGACTAG-TGGCTTCA
63 ATCTACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCA
* *
50639764 ATCTGCTCCACTGCAACTTTAGGGAGATAAGA
128 GTCTGCTCCACTGCAACTTCAGGGAGATAAGA
50639796 TTCACCATGA
Statistics
Matches: 284, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
177 33 0.12
178 28 0.10
179 3 0.01
180 6 0.02
181 173 0.61
182 4 0.01
183 2 0.01
184 35 0.12
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (182 bp):
TGCAACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTGACAACTTCAGAGAGATAAAATC
TACAATTTATAGCTTTAATCTGCTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTC
TGCTCCACTGCAACTTCAGGGAGATAAGACTTATAACTTCAACCTGTCCCAT
Done.