Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 68 of 127
Found at i:13227191 original size:18 final size:19
Alignment explanation
Indices: 13227156--13227225 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
13227146 GTTGATTTTT
13227156 ATTTTAATTTTAACTTTG-
1 ATTTTAATTTTAACTTTGA
*
13227174 ATTTTAATTTTTTA-TTTGA
1 ATTTTAA-TTTTAACTTTGA
* * *
13227193 ATTTTGATCTTTAAATTTAA
1 ATTTTAAT-TTTAACTTTGA
*
13227213 ATTTAAATTTTAA
1 ATTTTAATTTTAA
13227226 TATTTTTGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 12 0.29
19 20 0.48
20 10 0.24
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTTAATTTTAACTTTGA
Found at i:13227975 original size:21 final size:21
Alignment explanation
Indices: 13227951--13227992 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13227941 TTTGGTTGAA
13227951 TTTTTTAATTTTTTTGAGTTT
1 TTTTTTAATTTTTTTGAGTTT
** *
13227972 TTTTTTTGTTTTTTTGGGTTT
1 TTTTTTAATTTTTTTGAGTTT
13227993 GGGTTTGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (21 bp):
TTTTTTAATTTTTTTGAGTTT
Found at i:13228788 original size:15 final size:15
Alignment explanation
Indices: 13228751--13228859 Score: 71
Period size: 15 Copynumber: 6.9 Consensus size: 15
13228741 AATAATGTTT
*
13228751 TATATTATTGCATGA
1 TATATTTTTGCATGA
13228766 TATATTTTTGCATGA
1 TATATTTTTGCATGA
**
13228781 T-TATTTTTATATGA
1 TATATTTTTGCATGA
* *
13228795 TTTATTATATT-TATG-
1 TATATT-T-TTGCATGA
*
13228810 TTTGATTTTTGCATGA
1 TAT-ATTTTTGCATGA
13228826 TATTTTATATTATTGCATGA
1 TA---TAT-TT-TTGCATGA
13228846 TATATTTTTGCATG
1 TATATTTTTGCATG
13228860 GTTCATTATA
Statistics
Matches: 78, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
14 14 0.18
15 33 0.42
16 11 0.14
17 5 0.06
18 2 0.03
19 3 0.04
20 10 0.13
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.57
Consensus pattern (15 bp):
TATATTTTTGCATGA
Found at i:13230894 original size:17 final size:18
Alignment explanation
Indices: 13230874--13230915 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
13230864 AATATCATAG
13230874 AATTTTAA-TTTTTTAAA
1 AATTTTAATTTTTTTAAA
**
13230891 AATTAAAATTTTTTTTAAA
1 AATTTTAA-TTTTTTTAAA
13230910 AATTTT
1 AATTTT
13230916 TTAAAAAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTTAATTTTTTTAAA
Found at i:13230913 original size:13 final size:13
Alignment explanation
Indices: 13230895--13230943 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
13230885 TTTAAAAATT
13230895 AAAATTTTTTTTA
1 AAAATTTTTTTTA
**
13230908 AAAATTTTTTAAAA
1 AAAATTTTTT-TTA
13230922 AGTAAATTTTTTTTA
1 A--AAATTTTTTTTA
13230937 AAAATTT
1 AAAATTT
13230944 CATAGAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 16 0.55
14 2 0.07
15 2 0.07
16 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
AAAATTTTTTTTA
Found at i:13230927 original size:18 final size:18
Alignment explanation
Indices: 13230906--13230940 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13230896 AAATTTTTTT
13230906 TAAAAATTTTTTAAAAAG
1 TAAAAATTTTTTAAAAAG
**
13230924 TAAATTTTTTTTAAAAA
1 TAAAAATTTTTTAAAAA
13230941 TTTCATAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAAATTTTTTAAAAAG
Found at i:13230928 original size:29 final size:30
Alignment explanation
Indices: 13230880--13230943 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
13230870 ATAGAATTTT
*
13230880 AATTTTTTAAAAATTAAAATTTTTTTTAAA
1 AATTTTTTAAAAAGTAAAATTTTTTTTAAA
13230910 AATTTTTTAAAAAGT-AAATTTTTTTTAAA
1 AATTTTTTAAAAAGTAAAATTTTTTTTAAA
13230939 AATTT
1 AATTT
13230944 CATAGAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 19 0.58
30 14 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
AATTTTTTAAAAAGTAAAATTTTTTTTAAA
Found at i:13232838 original size:7 final size:7
Alignment explanation
Indices: 13232826--13232856 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13232816 AACACAGCTT
*
13232826 TTGCAAA
1 TTGCAAC
13232833 TTGCAAC
1 TTGCAAC
13232840 TTGCAAC
1 TTGCAAC
13232847 TTGCAAC
1 TTGCAAC
13232854 TTG
1 TTG
13232857 ACTTTTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (7 bp):
TTGCAAC
Found at i:13233591 original size:2 final size:2
Alignment explanation
Indices: 13233584--13233614 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13233574 AAAATAGAGC
13233584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13233615 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13233619 original size:2 final size:2
Alignment explanation
Indices: 13233614--13233638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13233604 ATATATATAT
13233614 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
13233639 ATGGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13233963 original size:2 final size:2
Alignment explanation
Indices: 13233956--13233994 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13233946 GAGCTGCTGG
13233956 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
13233995 CCGCAGGCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13235873 original size:28 final size:27
Alignment explanation
Indices: 13235840--13235925 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
13235830 ACTTTGGATT
13235840 TTAGGGTTTGGGATTTTGGATTTTAGGG
1 TTAGGGTTTGGGATTTT-GATTTTAGGG
* *
13235868 TTAGGGTTT-CGAGTTTCAGATTTTAGGG
1 TTAGGGTTTGGGA-TTT-TGATTTTAGGG
*
13235896 TTAGGAGATTTGGGA-TTTAATTTTAGGG
1 TTAGG-G-TTTGGGATTTTGATTTTAGGG
13235924 TT
1 TT
13235926 TAAAAGGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
27 2 0.04
28 38 0.79
29 3 0.06
30 3 0.06
31 2 0.04
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (27 bp):
TTAGGGTTTGGGATTTTGATTTTAGGG
Found at i:13235986 original size:21 final size:21
Alignment explanation
Indices: 13235917--13236015 Score: 76
Period size: 21 Copynumber: 4.6 Consensus size: 21
13235907 GGGATTTAAT
*
13235917 TTTAGGGTTTAAAAGGTTTAAAA
1 TTTAGGGTTT--AAGGTTTAGAA
* * **
13235940 GGTTTAGAGTTTAA-TTTTAGTG
1 --TTTAGGGTTTAAGGTTTAGAA
13235962 TTTAGAGGTTTAAGGTTT-GAA
1 TTTAG-GGTTTAAGGTTTAGAA
* *
13235983 TTTAGGGTTTAGGGTTTAGAT
1 TTTAGGGTTTAAGGTTTAGAA
13236004 TTTAGGGTTTAA
1 TTTAGGGTTTAA
13236016 TGAAAACACA
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
20 16 0.27
21 25 0.42
22 7 0.12
23 2 0.03
25 9 0.15
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAGAA
Found at i:13236001 original size:7 final size:7
Alignment explanation
Indices: 13235955--13236014 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
13235945 AGAGTTTAAT
*
13235955 TTTAGTG
1 TTTAGGG
13235962 TTTAGAGG
1 TTTAG-GG
*
13235970 TTTAAGG
1 TTTAGGG
**
13235977 TTT-GAA
1 TTTAGGG
13235983 TTTAGGG
1 TTTAGGG
13235990 TTTAGGG
1 TTTAGGG
**
13235997 TTTAGAT
1 TTTAGGG
13236004 TTTAGGG
1 TTTAGGG
13236011 TTTA
1 TTTA
13236015 ATGAAAACAC
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
6 3 0.08
7 32 0.80
8 5 0.12
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:13236014 original size:28 final size:28
Alignment explanation
Indices: 13235839--13236014 Score: 80
Period size: 28 Copynumber: 6.1 Consensus size: 28
13235829 GACTTTGGAT
*
13235839 TTTAGGGTTT-GGGATTTTGGATTTTAGGG
1 TTTAGGGTTTAGGG--TTTAGATTTTAGGG
* *
13235868 -TTAGGGTTTCGAGTTTCAGATTTTAGGG
1 TTTAGGGTTTAGGGTTT-AGATTTTAGGG
13235896 -TTAGGAGATTT-GGGATTTA-ATTTTAGGG
1 TTTAGG-G-TTTAGGG-TTTAGATTTTAGGG
* * * **
13235924 TTTAAAAGGTTTAAAAGGTTTAGAGTTTA-AT
1 TTT--AGGGTTT--AGGGTTTAGATTTTAGGG
* * **
13235955 TTTAGTGTTTAGAGGTTTA-AGGTTT-GAA
1 TTTAGGGTTTAG-GGTTTAGA-TTTTAGGG
13235983 TTTAGGGTTTAGGGTTTAGATTTTAGGG
1 TTTAGGGTTTAGGGTTTAGATTTTAGGG
13236011 TTTA
1 TTTA
13236015 ATGAAAACAC
Statistics
Matches: 114, Mismatches: 16, Indels: 35
0.69 0.10 0.21
Matches are distributed among these distances:
27 14 0.12
28 61 0.54
29 16 0.14
30 7 0.06
31 9 0.08
32 7 0.06
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.45
Consensus pattern (28 bp):
TTTAGGGTTTAGGGTTTAGATTTTAGGG
Found at i:13237956 original size:107 final size:107
Alignment explanation
Indices: 13237772--13238036 Score: 345
Period size: 107 Copynumber: 2.5 Consensus size: 107
13237762 AGAAAATAAA
* ** *
13237772 GACAACTGGGATTGAACCACAAGTTAGAAAAATAAAAGC-AACAGGATTAAATTACAAGTCAATA
1 GACAACTGGGATTGAACCGCAAGTTAGAAAAATAAAAGCGAATGGGATTAAATTACAAGTCAAGA
* *
13237836 AAACAAAAATGACCGGGATTGAACAATTACTC-GAAGATTAAC
66 AAACAAAAATGACCAGGATTGAACAACTACTCAG-AGATTAAC
* * * * *
13237878 GATAACTGGGATTGAATCGCAGGTCAGAAAAATAAAAGCGAATGGGATTAAATTACAAGTCAGGA
1 GACAACTGGGATTGAACCGCAAGTTAGAAAAATAAAAGCGAATGGGATTAAATTACAAGTCAAGA
* *
13237943 AAACAAAAATGACCAGGATTGAACCACTAGTCAGAGATTAAC
66 AAACAAAAATGACCAGGATTGAACAACTACTCAGAGATTAAC
* * * * *
13237985 GACAACTGGAACTGAACCGCAAGTTAAAAAAATAAAAGCGATTGTGATTAAA
1 GACAACTGGGATTGAACCGCAAGTTAGAAAAATAAAAGCGAATGGGATTAAA
13238037 CCGTGAGTCA
Statistics
Matches: 135, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
106 34 0.25
107 100 0.74
108 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (107 bp):
GACAACTGGGATTGAACCGCAAGTTAGAAAAATAAAAGCGAATGGGATTAAATTACAAGTCAAGA
AAACAAAAATGACCAGGATTGAACAACTACTCAGAGATTAAC
Found at i:13238046 original size:107 final size:107
Alignment explanation
Indices: 13237835--13239095 Score: 785
Period size: 107 Copynumber: 11.7 Consensus size: 107
13237825 ACAAGTCAAT
* * * * * ** * * * *
13237835 AAAACAAAAATGACCGGGATTGAACAATTACTC-GAAGATTAACGATAACTGGGATTGAATCGCA
1 AAAACAAAAATGATCGGGATTAAACCACTAGTCAG-AGATTAACGACGACTGGAACTGAACCGTA
* * * * ****
13237899 GGTCAGAAAAATAAAAGCGAATGGGATTAAATTACAAGTCAGG
65 AGTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * * *
13237942 AAAACAAAAATGACCAGGATTGAACCACTAGTCAGAGATTAACGACAACTGGAACTGAACCGCAA
1 AAAACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGAACTGAACCGTAA
* * * * * *
13238007 GTTAAAAAAATAAAAGCGATTGTGATTAAACCGTGAGTCAAG
66 GTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * *** * * * * *
13238049 AAAATAGAAATGATCATAATTAAATCA-TGAGTCAGAGATTAACGAAGA-T-CAGATTGAATCGT
1 AAAACAAAAATGATCGGGATTAAACCACT-AGTCAGAGATTAACGACGACTGGA-ACTGAACCGT
* * **
13238111 AAGTCAGAAAAATAAAAGTGACTGAGATTAAACTATAAGTCAGG
64 AAGTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * ** * * *
13238155 AACATAAAAATGATCGAAATTAAACCA-TGAGCCAGAGATTAACGACAACTAGG-ACTGAACTGT
1 AAAACAAAAATGATCGGGATTAAACCACT-AGTCAGAGATTAACGACGACT-GGAACTGAACCGT
* *
13238218 AAGTCAAAAAAATAAAAGCGACTGGGATTAAACCGTAAGTTA-G
64 AAGTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * ** * *
13238261 -AAACTATAGAAATGATCGGGATTAAACCACGAGTCAAAAATTAACGACGA-TCAAGATTGAACT
1 AAAAC-A-A-AAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGA-ACTGAACC
** * * * * * *
13238324 ACAAGTTAGAAAAATAAAAGCGACTAGGATTAAACTGTAAGTCAAG
62 GTAAGTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * * * * * * *
13238370 AACATAGAAATGATCGGGATTAAATCACGAGTCAGAGATTAACAACGATTGTAACTAAACCGTAA
1 AAAACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGAACTGAACCGTAA
* * ** * *
13238435 GT-AAAAAAAAAAAAATGACTGGGATTAAACTATAAGACAAG
66 GTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * * * *
13238476 AAACTATAAAAATGATCGGGATTAAACCACAAGTCAGAGATTAATGACGATTAGG-ACTAAATCG
1 AAA--ACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACT-GGAACTGAACCG
* * * *
13238540 CAAGTTC-AAAAAATAAAAGTGACTGGGATCAAATCGGAAGTCAGG
63 TAAG-TCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
*** * * * * *
13238585 -AAACTATAGAAAT-AGTTAAGATTAAACCACAAGTCAAAGATTAACGATGACTGGGACTGAACT
1 AAAAC-A-A-AAATGA-TCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGAACTGAACC
*
13238648 GTAAGTCAAAAAAATAAAATTGACTGGGATTAAACCGTAAGTCAGG
62 GTAAGTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * * * * * * *** *
13238694 AAGATAGAAATGATCGGGATTAAACCACGAGTCAAAGA-TAACAATGATTGGGGTTGAAACGTAA
1 AAAACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGAACTGAACCGTAA
* * ** **
13238758 GTCAGAAAAATAAAAGTGATTGAAATTAAACCACAAGTCAGG
66 GTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * ** * * * * **
13238800 AAAACAGAAATGACCAAGATTGAACCACTAGTTAGAGATTAATGATGACTAGG-GTTGAACCGTA
1 AAAACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACT-GGAACTGAACCGTA
* * * * *
13238864 AGTCAAAAAAATAAAAATGATTGGAATTAAACCGCAGGTCAGG
65 AGTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * * * * *
13238907 AAAACAAAAATGATCGGGATTGAACAACTAGTTAGAGATTAACGATGATTGGGATTGAACCGTAA
1 AAAACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGAACTGAACCGTAA
* ** * * * *
13238972 ATCCGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTCAAG
66 GTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
* * * * * **
13239014 -AAACTATAGAAATGATCGAGATTAAACTACGAGTCAGAGATTAACGATGATTGTG-ACTGAATA
1 AAAAC-A-A-AAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTG-GAACTGAACC
*
13239077 GCAAGTCAAAAAAATAAAA
62 GTAAGTCAAAAAAATAAAA
13239096 AAATTGATCG
Statistics
Matches: 918, Mismatches: 201, Indels: 68
0.77 0.17 0.06
Matches are distributed among these distances:
105 3 0.00
106 211 0.23
107 384 0.42
108 145 0.16
109 170 0.19
110 5 0.01
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (107 bp):
AAAACAAAAATGATCGGGATTAAACCACTAGTCAGAGATTAACGACGACTGGAACTGAACCGTAA
GTCAAAAAAATAAAAGTGACTGGGATTAAACCGTAAGTCAGG
Found at i:13238177 original size:36 final size:36
Alignment explanation
Indices: 13238110--13238179 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
13238100 GATTGAATCG
* *
13238110 TAAGTCAGAAAAATAAAAGTGACTGAGATTAAACTA
1 TAAGTCAGAAAAATAAAAATGACTGAAATTAAACTA
* *
13238146 TAAGTCAGGAACATAAAAATGA-TCGAAATTAAAC
1 TAAGTCAGAAAAATAAAAATGACT-GAAATTAAAC
13238180 CATGAGCCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 1 0.03
36 28 0.97
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.21
Consensus pattern (36 bp):
TAAGTCAGAAAAATAAAAATGACTGAAATTAAACTA
Found at i:13238384 original size:215 final size:213
Alignment explanation
Indices: 13237886--13239096 Score: 968
Period size: 215 Copynumber: 5.6 Consensus size: 213
13237876 ACGATAACTG
* * * * * * * * * *
13237886 GGATTGAATCGCAGGTCAGAAAAATAAAAGCGAATGGGATTAAATTACAAGTCAGGAAAACAAAA
1 GGATTGAAT-ACAAGTCAGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTCAGGAACATAGAA
* * * * * * *
13237951 ATGA-CCAGGATTGAACCACTAGTCAGAGATTAACGACAACT-GGAACTGAACCGCAAGTTAAAA
65 ATGATCGA-AATTAAACCACGAGTCAGAGATTAACGACGACTAGG-ACTGAACCGTAAGTCAAAA
** * * * *** * *
13238014 AAATAAAAGCGATTGTGATTAAACCGTGAGTCAAGAAA-ATAGAAATGATCATAATTAAATCATG
128 AAATAAAAATGACTGGGATTAAACCGTAAGT-AAGAAACATAGAAATGATCGGGATTAAACCACG
* *
13238078 AGTCAGAGATTAACGAAGATCA
192 AGTCAGAGATTAACGACGATTA
** *
13238100 -GATTGAAT-CGTAAGTCAGAAAAATAAAAGTGACTGAGATTAAACTATAAGTCAGGAACATAAA
1 GGATTGAATAC--AAGTCAGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTCAGGAACATAGA
* * * *
13238163 AATGATCGAAATTAAACCATGAGCCAGAGATTAACGACAACTAGGACTGAACTGTAAGTCAAAAA
64 AATGATCGAAATTAAACCACGAGTCAGAGATTAACGACGACTAGGACTGAACCGTAAGTCAAAAA
** *
13238228 AATAAAAGCGACTGGGATTAAACCGTAAGTTAGAAACTATAGAAATGATCGGGATTAAACCACGA
129 AATAAAAATGACTGGGATTAAACCGTAAGTAAGAAAC-ATAGAAATGATCGGGATTAAACCACGA
* * *
13238293 GTCAAAAATTAACGACGATCA
193 GTCAGAGATTAACGACGATTA
* * * * *
13238314 AGATTGAACTACAAGTTAGAAAAATAAAAGCGACT-AGGATTAAACTGTAAGTCAAGAACATAGA
1 GGATTGAA-TACAAGTCAGAAAAATAAAAGTGACTGA-GATTAAACTGCAAGTCAGGAACATAGA
** * * * * *
13238378 AATGATCGGGATTAAATCACGAGTCAGAGATTAACAACGA-TTGTAACTAAACCGTAAGT-AAAA
64 AATGATCGAAATTAAACCACGAGTCAGAGATTAACGACGACTAG-GACTGAACCGTAAGTCAAAA
* ** * *
13238441 AAAAAAAAATGACTGGGATTAAACTATAAGACAAGAAACTATAAAAATGATCGGGATTAAACCAC
128 AAATAAAAATGACTGGGATTAAACCGTAAG-TAAGAAAC-ATAGAAATGATCGGGATTAAACCAC
* *
13238506 AAGTCAGAGATTAATGACGATTA
191 GAGTCAGAGATTAACGACGATTA
* * * * * *
13238529 GGACTAAATCGCAAGTTCA-AAAAATAAAAGTGACTGGGATCAAA-TCGGAAGTCAGGAAACTAT
1 GGATTGAAT-ACAAG-TCAGAAAAATAAAAGTGACTGAGATTAAACT-GCAAGTCAGG-AAC-AT
* * * * * *
13238592 AGAAAT-AGT-TAAGATTAAACCACAAGTCAAAGATTAACGATGACTGGGACTGAACTGTAAGTC
61 AGAAATGA-TCGAA-ATTAAACCACGAGTCAGAGATTAACGACGACTAGGACTGAACCGTAAGTC
* * * *
13238655 AAAAAAATAAAATTGACTGGGATTAAACCGTAAGTCAGGAAGATAGAAATGATCGGGATTAAACC
124 AAAAAAATAAAAATGACTGGGATTAAACCGTAAGTAAGAAACATAGAAATGATCGGGATTAAACC
* * * *
13238720 ACGAGTCAAAGA-TAACAATGATTG
189 ACGAGTCAGAGATTAACGACGATTA
* * * ** * *
13238744 GGGTTGAA-ACGTAAGTCAGAAAAATAAAAGTGATTGAAATTAAACCACAAGTCAGGAAAACAGA
1 GGATTGAATAC--AAGTCAGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTCAGGAACATAGA
* * * * * * **
13238808 AATGA-CCAAGATTGAACCACTAGTTAGAGATTAATGATGACTAGGGTTGAACCGTAAGTCAAAA
64 AATGATCGAA-ATTAAACCACGAGTCAGAGATTAACGACGACTAGGACTGAACCGTAAGTCAAAA
* * * * * * *
13238872 AAATAAAAATGATTGGAATTAAACCGCAGGTCAGGAAAACA-A-AAATGATCGGGATTGAACAAC
128 AAATAAAAATGACTGGGATTAAACCGTAAGT-AAG-AAACATAGAAATGATCGGGATTAAACCAC
* * * *
13238935 TAGTTAGAGATTAACGATGATTG
191 GAGTCAGAGATTAACGACGATTA
* *
13238958 GGATTGAACCGTA-AA-TCCGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTCAAGAAACTAT
1 GGATTGAA---TACAAGTCAGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTC-AGGAAC-AT
* * * * ** *
13239021 AGAAATGATCGAGATTAAACTACGAGTCAGAGATTAACGATGA-TTGTGACTGAATAGCAAGTCA
61 AGAAATGATCGAAATTAAACCACGAGTCAGAGATTAACGACGACTAG-GACTGAACCGTAAGTCA
13239085 AAAAAATAAAAA
125 AAAAAATAAAAA
13239097 AATTGATCGG
Statistics
Matches: 803, Mismatches: 155, Indels: 76
0.78 0.15 0.07
Matches are distributed among these distances:
211 1 0.00
212 5 0.01
213 237 0.30
214 137 0.17
215 240 0.30
216 97 0.12
217 53 0.07
218 33 0.04
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (213 bp):
GGATTGAATACAAGTCAGAAAAATAAAAGTGACTGAGATTAAACTGCAAGTCAGGAACATAGAAA
TGATCGAAATTAAACCACGAGTCAGAGATTAACGACGACTAGGACTGAACCGTAAGTCAAAAAAA
TAAAAATGACTGGGATTAAACCGTAAGTAAGAAACATAGAAATGATCGGGATTAAACCACGAGTC
AGAGATTAACGACGATTA
Found at i:13238609 original size:109 final size:109
Alignment explanation
Indices: 13238111--13238695 Score: 354
Period size: 108 Copynumber: 5.4 Consensus size: 109
13238101 ATTGAATCGT
* * * *** * *
13238111 AAGTCAGAAAAATAAAAGTGACTGAGATTAAACTATAAGTCAGG-AAC-ATAAAAAT-GATCGAA
1 AAGTCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAAACTATAGAAATAG-T-TAA
** * * * * *
13238173 -ATTAAACCATGAGCCAGAGATTAACGACAACTAGGACTGAACTGT
64 GATTAAACCACAAGTCAAAGATTAACGACGACTAGGACTAAACTGC
* * * * ***
13238218 AAGTCAAAAAAATAAAAGCGACTGGGATTAAACCGTAAGTTA-GAAACTATAGAAAT-GATCGGG
1 AAGTCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAAACTATAGAAATAG-TTAAG
* * * * * *
13238281 ATTAAACCACGAGTCAAAAATTAACGACGA-TCAAGATTGAACTAC
65 ATTAAACCACAAGTCAAAGATTAACGACGACT-AGGACTAAACTGC
* * * * * * * * ***
13238326 AAGTTAGAAAAATAAAAGCGACTAGGATTAAACTGTAAGTCAAG-AAC-ATAGAAAT-GATCGGG
1 AAGTCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAAACTATAGAAATAG-TTAAG
* * * * * * * *
13238388 ATTAAATCACGAGTCAGAGATTAACAACGA-TTGTAACTAAACCGT
65 ATTAAACCACAAGTCAAAGATTAACGACGACTAG-GACTAAACTGC
* * * *** * * * ***
13238433 AAGT-AAAAAAAAAAAAATGACTGGGATTAAACTATAAGACAAGAAACTATAAAAAT-GATCGGG
1 AAGTCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAAACTATAGAAATAG-TTAAG
* * *
13238496 ATTAAACCACAAGTCAGAGATTAATGACGATTAGGACTAAA-TCGC
65 ATTAAACCACAAGTCAAAGATTAACGACGACTAGGACTAAACT-GC
*
13238541 AAGTTC-AAAAAATAAAAGTGACTGGGATCAAATCGGAAGTCAGGAAACTATAGAAATAGTTAAG
1 AAG-TCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAAACTATAGAAATAGTTAAG
* * * *
13238605 ATTAAACCACAAGTCAAAGATTAACGATGACTGGGACTGAACTGT
65 ATTAAACCACAAGTCAAAGATTAACGACGACTAGGACTAAACTGC
* * *
13238650 AAGTCAAAAAAATAAAATTGACTGGGATTAAACCGTAAGTCAGGAA
1 AAGTCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAA
13238696 GATAGAAATG
Statistics
Matches: 387, Mismatches: 76, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
106 33 0.09
107 94 0.24
108 136 0.35
109 122 0.32
110 2 0.01
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (109 bp):
AAGTCAAAAAAATAAAAGTGACTGGGATCAAACCGGAAGTCAGGAAACTATAGAAATAGTTAAGA
TTAAACCACAAGTCAAAGATTAACGACGACTAGGACTAAACTGC
Found at i:13239151 original size:22 final size:22
Alignment explanation
Indices: 13239123--13239165 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13239113 AAGCAAATCA
*
13239123 AAATTATGCCTAGAGGTCTTAT
1 AAATTATGCCCAGAGGTCTTAT
13239145 AAATTATGCCCAGAGGTCTTA
1 AAATTATGCCCAGAGGTCTTA
13239166 AAAAATCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (22 bp):
AAATTATGCCCAGAGGTCTTAT
Found at i:13239995 original size:41 final size:41
Alignment explanation
Indices: 13239912--13239998 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
13239902 TTTCTTATGG
** ** * * * *
13239912 TGCAAATGCAAATGTCTTTTTTGTGATGCAGATGCTATTGA
1 TGCAAATGCAAATGTCCCTTTAATGATGCACAGGCAAGTGA
13239953 TGCAAATGCAAATGTCCCTTTAATGATGCACAGGCAAGTGA
1 TGCAAATGCAAATGTCCCTTTAATGATGCACAGGCAAGTGA
13239994 TGCAA
1 TGCAA
13239999 CTACAAATCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (41 bp):
TGCAAATGCAAATGTCCCTTTAATGATGCACAGGCAAGTGA
Found at i:13246275 original size:16 final size:17
Alignment explanation
Indices: 13246242--13246277 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
13246232 TTTGAAAATG
13246242 TTTTTTTTTTTGCCCTTT
1 TTTTTTTTTTTG-CCTTT
13246260 TTTTTTTTTTTG-CTTT
1 TTTTTTTTTTTGCCTTT
13246276 TT
1 TT
13246278 GCTTGTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
18 12 0.67
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTTGCCTTT
Found at i:13247261 original size:13 final size:13
Alignment explanation
Indices: 13247243--13247267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13247233 TTCTCTTTTA
13247243 TATTTTTTTAAAT
1 TATTTTTTTAAAT
13247256 TATTTTTTTAAA
1 TATTTTTTTAAA
13247268 ATTCTTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTTTTAAAT
Found at i:13247898 original size:13 final size:13
Alignment explanation
Indices: 13247880--13247908 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13247870 ATTTAGGCAA
13247880 CACTTGAGATTTT
1 CACTTGAGATTTT
13247893 CACTTGAGATTTT
1 CACTTGAGATTTT
13247906 CAC
1 CAC
13247909 ACGTATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (13 bp):
CACTTGAGATTTT
Found at i:13248054 original size:22 final size:21
Alignment explanation
Indices: 13248029--13248075 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
13248019 ATTTTAAGAC
*
13248029 TTTGGATTTTAGGGTTTGGGAT
1 TTTGGATTTTAGGGTTAGGG-T
13248051 TTTGGATTTTAGGGTTAGGGT
1 TTTGGATTTTAGGGTTAGGGT
13248072 TTTG
1 TTTG
13248076 AGTTTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (21 bp):
TTTGGATTTTAGGGTTAGGGT
Found at i:13248087 original size:28 final size:28
Alignment explanation
Indices: 13248056--13248241 Score: 119
Period size: 28 Copynumber: 6.5 Consensus size: 28
13248046 GGGATTTTGG
13248056 ATTTTAGGG-TTAGGGTTTTGAGTTTCAA
1 ATTTTAGGGTTTAGGGTTTTGAGTTT-AA
* *
13248084 ATTTTAGGGTTTAGAGATTTGAGATTT-A
1 ATTTTAGGGTTTAGGGTTTTGAG-TTTAA
* * * *
13248112 ATTTTAGGATTTAGAGGTTTGGGGTTTGGA
1 ATTTTAGGGTTTAG-GGTTTTGAGTTT-AA
* *
13248142 TTTTTAGGGTTTAAAGGGTTTAGAGTTTAA
1 ATTTTAGGGTTT--AGGGTTTTGAGTTTAA
* * *
13248172 A-TTTAGGGTTTAGAGGTTTAGGGTTTGA
1 ATTTTAGGGTTTAG-GGTTTTGAGTTTAA
* * * *
13248200 A-TTTAAGGTTTAGAGGGTTTAGGGTTTAG
1 ATTTTAGGGTTT--AGGGTTTTGAGTTTAA
*
13248229 ATTTTAAGGTTTA
1 ATTTTAGGGTTTA
13248242 ACGAGAACAC
Statistics
Matches: 129, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
27 2 0.02
28 49 0.38
29 39 0.30
30 27 0.21
31 10 0.08
32 2 0.02
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.45
Consensus pattern (28 bp):
ATTTTAGGGTTTAGGGTTTTGAGTTTAA
Found at i:13248154 original size:7 final size:7
Alignment explanation
Indices: 13248144--13248228 Score: 57
Period size: 7 Copynumber: 11.7 Consensus size: 7
13248134 GGTTTGGATT
13248144 TTTAGGG
1 TTTAGGG
13248151 TTTAAAGGG
1 TTT--AGGG
*
13248160 TTTAGAG
1 TTTAGGG
**
13248167 TTTA-AA
1 TTTAGGG
13248173 TTTAGGG
1 TTTAGGG
13248180 TTTAGAGG
1 TTTAG-GG
13248188 TTTAGGG
1 TTTAGGG
**
13248195 TTT-GAA
1 TTTAGGG
*
13248201 TTTAAGG
1 TTTAGGG
13248208 TTTAGAGGG
1 TTT--AGGG
13248217 TTTAGGG
1 TTTAGGG
13248224 TTTAG
1 TTTAG
13248229 ATTTTAAGGT
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
6 9 0.15
7 32 0.52
8 7 0.11
9 13 0.21
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:13248212 original size:87 final size:88
Alignment explanation
Indices: 13248036--13248242 Score: 241
Period size: 87 Copynumber: 2.4 Consensus size: 88
13248026 GACTTTGGAT
* *
13248036 TTTAG-GGTTTGGGATTTTGGATTTTAGGG-TT--AGGGTTTTGAGTTTCAAATTTTAGGGTTTA
1 TTTAGAGGTTTGGG-GTTTGGATTTTAGGGTTTAAAGGGTTTAGAGTTTCAAATTTTAGGGTTTA
*
13248097 GAGATTTGAGATTTAATTTTAGGA
65 GAGATTTGAGATTTAATTTAAGGA
13248121 TTTAGAGGTTTGGGGTTTGGATTTTTAGGGTTTAAAGGGTTTAGAGTTT-AAA-TTTAGGGTTTA
1 TTTAGAGGTTTGGGGTTTGGA-TTTTAGGGTTTAAAGGGTTTAGAGTTTCAAATTTTAGGGTTTA
* *
13248184 GAGGTTT-AGGGTTTGAATTTAAGG-
65 GAGATTTGA-GATTT-AATTTAAGGA
* * *
13248208 TTTAGAGGGTTTAGGGTTTAGATTTTAAGGTTTAA
1 TTTAGA-GGTTTGGGGTTTGGATTTTAGGGTTTAA
13248243 CGAGAACACG
Statistics
Matches: 106, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
85 11 0.10
86 17 0.16
87 41 0.39
88 24 0.23
89 13 0.12
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (88 bp):
TTTAGAGGTTTGGGGTTTGGATTTTAGGGTTTAAAGGGTTTAGAGTTTCAAATTTTAGGGTTTAG
AGATTTGAGATTTAATTTAAGGA
Found at i:13248416 original size:15 final size:15
Alignment explanation
Indices: 13248379--13248422 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 15
13248369 ATTATTACAC
13248379 TTTTTTT-AAATTTT
1 TTTTTTTAAAATTTT
13248393 TTTAATTTTAAAATTTT
1 TTT--TTTTAAAATTTT
*
13248410 TTTTTTTATAATT
1 TTTTTTTAAAATT
13248423 CCCCAACATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 4 0.15
17 10 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTTTAAAATTTT
Found at i:13250051 original size:35 final size:35
Alignment explanation
Indices: 13250012--13250078 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
13250002 TGTGAGTTAG
*
13250012 AAAAT-AAAGACAACTGGGATTGAACCACAAGTCAA
1 AAAATAAAAG-CAACTGGGATTAAACCACAAGTCAA
* *
13250047 AAAATAAAAGCGACTGGGATTAAACTACAAGT
1 AAAATAAAAGCAACTGGGATTAAACCACAAGT
13250079 TAGGAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 24 0.86
36 4 0.14
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (35 bp):
AAAATAAAAGCAACTGGGATTAAACCACAAGTCAA
Found at i:13250423 original size:36 final size:35
Alignment explanation
Indices: 13250359--13250547 Score: 109
Period size: 36 Copynumber: 5.2 Consensus size: 35
13250349 ATTGAACCGC
* *
13250359 AAGTCAAAAAAATAAAAGTGA-CTAGGATTAAACTAT
1 AAGTCAAAAATATAAAA-TGATC-GGGATTAAACTAT
*
13250395 AAGTCAAAAATATAGAAATGATCGGGATTAAACCAT
1 AAGTCAAAAATATA-AAATGATCGGGATTAAACTAT
* * ** *
13250431 AAGTCAGAAAT-TAACGACCA-CTGGGATTGAACTAT
1 AAGTCAAAAATATAA-AATGATC-GGGATTAAACTAT
* ** **
13250466 AAGTCAAAAAAATAAAA-GCAATTAGGATTAAA-TCGC
1 AAGTCAAAAATATAAAATG--ATCGGGATTAAACT-AT
*
13250502 AAGTCAAGAAACTATAGAAATGATCGGGATTAAACCAT
1 AAGTCAA-AAA-TATA-AAATGATCGGGATTAAACTAT
*
13250540 GAGTCAAA
1 AAGTCAAA
13250548 GATTAATGAC
Statistics
Matches: 114, Mismatches: 25, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
34 2 0.02
35 26 0.23
36 55 0.48
37 8 0.07
38 19 0.17
39 3 0.03
40 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (35 bp):
AAGTCAAAAATATAAAATGATCGGGATTAAACTAT
Found at i:13250752 original size:108 final size:109
Alignment explanation
Indices: 13250026--13250914 Score: 793
Period size: 107 Copynumber: 8.3 Consensus size: 109
13250016 TAAAGACAAC
** * *
13250026 TGGGATTGAACCACAAGTC-AAAAAATAAAAGCGACTGGGATTAAACTACAAGTTAGGAAA--AT
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
* *
13250088 AGAAATGATCGAGATTAAACCACTAGTCAGAGATTAACGATGAT
66 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
* * * * * *
13250132 TGGGATTAAACCGTAAGTCAAAAATATAAAAGCGATTGGGATTAAACTACGAGTTAGGAAA--AT
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
* * * * * *
13250195 AGAAATGATCGAAATTGAACCACTAGTCGGAGATTAATGACGAA
66 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
* ** * * * *
13250239 TGGGACTGAACCACAAGCCAAAAAAATAAAAAG-AACTAGGATTAAACCACAAGTCA-GAAA-AA
1 TGGGATTGAACCGTAAGTCAAAAAAAT-AAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTA
* * * * * * *
13250301 TAGAAAGGATCAAAATTTAATCATGAGTCAGAGA-TAACGAAGAT
65 TAGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
* * * * *
13250345 TGGAATTGAACCGCAAGTCAAAAAAATAAAAGTGACTAGGATTAAACTATAAGTCA--AAAATAT
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
* ** * * *
13250408 AGAAATGATCGGGATTAAACCATAAGTCAGAAATTAACGACCAC
66 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
** * * * *
13250452 TGGGATTGAACTATAAGTCAAAAAAATAAAAGCAATTAGGATTAAA-TCGCAAGTCAAGAAACTA
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACT-ACAAGTCAGGAAACTA
* * * * *
13250516 TAGAAATGATCGGGATTAAACCATGAGTCAAAGATTAATGACAAT
65 TAGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
* * ** * * * ***
13250561 CGAGATTGATTCGCAAGTTAAAAAAATAAAAGCCACTAGGATTAAACCGTAAGTCAGG-AAC-AT
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
* * *
13250624 AGAAATGACCGAGATTAAACCACGAGTCAAAGATTAACGATGAT
66 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
* * ** * * *
13250668 TGGGACTGAACCATAAGTCAAAAAAATAAAAATGACTGGGA-TAAACTGCAGGTCAGGAAACTAT
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
* * *
13250732 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACAAAGAC
66 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
** * * * * * * * *
13250776 TAAGACTGAATCGTAAGTCCAAAAAATAAAAGTGA-TTGCATTAAACTGCAAGTTAGGAAACTAT
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
** * *
13250840 AGAAATGATCGAGATTAAACCACGAGTTGGAGATTAATGATGAT
66 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
* * * *
13250884 AGGGACTGAATCGTAAGTCAGAAAAATAAAA
1 TGGGATTGAACCGTAAGTCAAAAAAATAAAA
13250915 AAATCGATTG
Statistics
Matches: 641, Mismatches: 129, Indels: 24
0.81 0.16 0.03
Matches are distributed among these distances:
105 8 0.01
106 111 0.17
107 271 0.42
108 163 0.25
109 88 0.14
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (109 bp):
TGGGATTGAACCGTAAGTCAAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACTAT
AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACGACGAT
Found at i:13250844 original size:216 final size:215
Alignment explanation
Indices: 13250026--13250915 Score: 791
Period size: 216 Copynumber: 4.1 Consensus size: 215
13250016 TAAAGACAAC
* * * * *
13250026 TGGGATTGAACCACAAGTC-AAAAAATAAAAGCGACTGGGATTAAACTACAAGTTAGGAAA-ATA
1 TGGGACTGAACCATAAGTCAAAAAAATAAAAACGACTAGGATTAAACTACAAGTCAGGAAATATA
* * * * * *
13250089 GAAATGATCGAGATTAAACCACTAGTCAGAGATTAACGATGATTGGGATTAAACCGTAAGTCAAA
66 GAAATGATCGAGATTAAACCACGAGTCAGAGATTAACAAAGA-TGAGATTGAACCGCAAGTCAAA
* * * * * * *
13250154 AATATAAAAGCGATTGGGATTAAACTACGAGTTAGGAAA-ATAGAAATGATCGAAATTGAACCAC
130 AAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACATAGAAATGATCGAGATTAAACCAC
* ** * *
13250218 TAGTCGGAGATTAATGACGAA
195 GAGTCAAAGATTAACGACGAT
* * * *
13250239 TGGGACTGAACCACAAGCCAAAAAAATAAAAA-GAACTAGGATTAAACCACAAGTCA-GAAAAAT
1 TGGGACTGAACCATAAGTCAAAAAAATAAAAACG-ACTAGGATTAAACTACAAGTCAGGAAATAT
* * * * * * *
13250302 AGAAAGGATCAAAATTTAATCATGAGTCAGAGA-TAACGAAGATTG-GAATTGAACCGCAAGTCA
65 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACAAAGA-TGAG-ATTGAACCGCAAGTCA
* * * * *
13250365 AAAAAATAAAAGTGACTAGGATTAAACTATAAGTCA-AAAATATAGAAATGATCGGGATTAAACC
128 AAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACATAGAAATGATCGAGATTAAACC
** * *
13250429 ATAAGTCAGAA-ATTAACGACCAC
193 ACGAGTCA-AAGATTAACGACGAT
* * * * * * *
13250452 TGGGATTGAACTATAAGTCAAAAAAATAAAAGCAATTAGGATTAAA-TCGCAAGTCAAGAAACTA
1 TGGGACTGAACCATAAGTCAAAAAAATAAAAACGACTAGGATTAAACT-ACAAGTCAGGAAA-TA
* * * * * ** *
13250516 TAGAAATGATCGGGATTAAACCATGAGTCAAAGATTAATGACA-ATCGAGATTGATTCGCAAGTT
64 TAGAAATGATCGAGATTAAACCACGAGTCAGAGATTAA-CAAAGAT-GAGATTGAACCGCAAGTC
* *** *
13250580 AAAAAAATAAAAGCCACTAGGATTAAACCGTAAGTCAGG-AACATAGAAATGACCGAGATTAAAC
127 AAAAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACATAGAAATGATCGAGATTAAAC
*
13250644 CACGAGTCAAAGATTAACGATGAT
192 CACGAGTCAAAGATTAACGACGAT
* * * *
13250668 TGGGACTGAACCATAAGTCAAAAAAATAAAAATGACTGGGA-TAAACTGCAGGTCAGGAAACTAT
1 TGGGACTGAACCATAAGTCAAAAAAATAAAAACGACTAGGATTAAACTACAAGTCAGGAAA-TAT
* * * * *
13250732 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACAAAGACTAAGACTGAATCGTAAGTCCA
65 AGAAATGATCGAGATTAAACCACGAGTCAGAGATTAACAAAGA-TGAGATTGAACCGCAAGTCAA
* * * * *
13250797 AAAAATAAAAGTGA-TTGCATTAAACTGCAAGTTAGGAAACTATAGAAATGATCGAGATTAAACC
129 AAAAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAAC-ATAGAAATGATCGAGATTAAACC
*** * *
13250861 ACGAGTTGGAGATTAATGATGAT
193 ACGAGTCAAAGATTAACGACGAT
* * * *
13250884 AGGGACTGAATCGTAAGTCAGAAAAATAAAAA
1 TGGGACTGAACCATAAGTCAAAAAAATAAAAA
13250916 AATCGATTGA
Statistics
Matches: 550, Mismatches: 106, Indels: 39
0.79 0.15 0.06
Matches are distributed among these distances:
212 4 0.01
213 155 0.28
214 82 0.15
215 114 0.21
216 193 0.35
217 2 0.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (215 bp):
TGGGACTGAACCATAAGTCAAAAAAATAAAAACGACTAGGATTAAACTACAAGTCAGGAAATATA
GAAATGATCGAGATTAAACCACGAGTCAGAGATTAACAAAGATGAGATTGAACCGCAAGTCAAAA
AAATAAAAGCGACTAGGATTAAACTACAAGTCAGGAAACATAGAAATGATCGAGATTAAACCACG
AGTCAAAGATTAACGACGAT
Found at i:13251737 original size:25 final size:25
Alignment explanation
Indices: 13251703--13251750 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
13251693 TTTCTTACGG
13251703 TGCAAATGCAAATGTATTATACATA
1 TGCAAATGCAAATGTATTATACATA
13251728 TGCAAATGCAAATGTATTATACA
1 TGCAAATGCAAATGTATTATACA
13251751 GATGGAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (25 bp):
TGCAAATGCAAATGTATTATACATA
Found at i:13251761 original size:25 final size:25
Alignment explanation
Indices: 13251703--13251763 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
13251693 TTTCTTACGG
*
13251703 TGCAAATGCAAATGTATTATACATA
1 TGCAAATGCAAATGTATTATACAGA
13251728 TGCAAATGCAAATGTATTATACAGA
1 TGCAAATGCAAATGTATTATACAGA
* *
13251753 TGGAGATGCAA
1 TGCAAATGCAA
13251764 GTGATGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.28
Consensus pattern (25 bp):
TGCAAATGCAAATGTATTATACAGA
Found at i:13259917 original size:15 final size:15
Alignment explanation
Indices: 13259897--13259931 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
13259887 AATTTGAAGT
*
13259897 TTTTAAAATTTTGGA
1 TTTTAAAACTTTGGA
13259912 TTTTAAAACTTTGGA
1 TTTTAAAACTTTGGA
13259927 TTTTA
1 TTTTA
13259932 GGGTTTGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (15 bp):
TTTTAAAACTTTGGA
Found at i:13260041 original size:30 final size:29
Alignment explanation
Indices: 13260004--13260132 Score: 129
Period size: 30 Copynumber: 4.4 Consensus size: 29
13259994 TTGGGATTTA
* *
13260004 ATTTTAGGGTTTGCA-GGTTTGGGGTTTGG
1 ATTTTAGGGTTTGAAGGGTTTAGGGTTT-G
* * * *
13260033 ATTTTTAGGATTTAAAGGGTTTAGAGTTTA
1 A-TTTTAGGGTTTGAAGGGTTTAGGGTTTG
13260063 ATTTTAGGGTTT--AGAGGTTTAGGGTTTG
1 ATTTTAGGGTTTGAAG-GGTTTAGGGTTTG
* *
13260091 AATTTAGGGTTTGAAGGGTTTAAGGTTTAG
1 ATTTTAGGGTTTGAAGGGTTTAGGGTTT-G
13260121 ATTTTAGGGTTT
1 ATTTTAGGGTTT
13260133 AACGAAAACA
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
27 2 0.02
28 22 0.27
29 22 0.27
30 26 0.32
31 10 0.12
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.46
Consensus pattern (29 bp):
ATTTTAGGGTTTGAAGGGTTTAGGGTTTG
Found at i:13260069 original size:59 final size:57
Alignment explanation
Indices: 13260000--13260133 Score: 173
Period size: 59 Copynumber: 2.3 Consensus size: 57
13259990 AGATTTGGGA
* *
13260000 TTTAATTTTAGGGTTT-GCAGGTTTGGGGTTTGGATTTTTAGGATTTAAAGGGTTT-AGAG
1 TTTAATTTTAGGGTTTAG-AGGTTTAGGGTTT-GA-ATTTAGGATTTAAAGGGTTTAAG-G
* *
13260059 TTTAATTTTAGGGTTTAGAGGTTTAGGGTTTGAATTTAGGGTTTGAAGGGTTTAAGG
1 TTTAATTTTAGGGTTTAGAGGTTTAGGGTTTGAATTTAGGATTTAAAGGGTTTAAGG
13260116 TTTAGATTTTAGGGTTTA
1 TTTA-ATTTTAGGGTTTA
13260134 ACGAAAACAC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
57 22 0.32
58 17 0.25
59 28 0.41
60 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (57 bp):
TTTAATTTTAGGGTTTAGAGGTTTAGGGTTTGAATTTAGGATTTAAAGGGTTTAAGG
Found at i:13260074 original size:13 final size:13
Alignment explanation
Indices: 13260051--13260134 Score: 62
Period size: 13 Copynumber: 6.0 Consensus size: 13
13260041 GATTTAAAGG
*
13260051 GTTTAGAGTTTAA
1 GTTTAGGGTTTAA
*
13260064 TTTTAGGGTTTAGA
1 GTTTAGGGTTTA-A
13260078 GGTTTAGGGTTTGAA
1 -GTTTAGGGTTT-AA
13260093 -TTTAGGGTTTGAA
1 GTTTAGGGTTT-AA
*
13260106 GGGTTTAAGGTTTAGA
1 --GTTTAGGGTTTA-A
*
13260122 TTTTAGGGTTTAA
1 GTTTAGGGTTTAA
13260135 CGAAAACACG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
13 24 0.41
14 11 0.19
15 12 0.21
16 11 0.19
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:13260075 original size:29 final size:28
Alignment explanation
Indices: 13260000--13260134 Score: 112
Period size: 29 Copynumber: 4.6 Consensus size: 28
13259990 AGATTTGGGA
** * *
13260000 TTTAATTTTAGGGTTTGCAGGTTTGGGG
1 TTTAATTTTAGGGTTTAAAGGTTTAGAG
* *
13260028 TTTGGATTTTTAGGATTTAAAGGGTTTAGAG
1 TTT--AATTTTAGGGTTTAAA-GGTTTAGAG
* *
13260059 TTTAATTTTAGGGTTTAGAGGTTTAGGG
1 TTTAATTTTAGGGTTTAAAGGTTTAGAG
*
13260087 TTTGAA-TTTAGGGTTTGAAGGGTTTA-AGG
1 TTT-AATTTTAGGGTTT-AAAGGTTTAGA-G
13260116 TTTAGATTTTAGGGTTTAA
1 TTTA-ATTTTAGGGTTTAA
13260135 CGAAAACACG
Statistics
Matches: 86, Mismatches: 13, Indels: 15
0.75 0.11 0.13
Matches are distributed among these distances:
28 25 0.29
29 29 0.34
30 22 0.26
31 10 0.12
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.46
Consensus pattern (28 bp):
TTTAATTTTAGGGTTTAAAGGTTTAGAG
Found at i:13261592 original size:3 final size:3
Alignment explanation
Indices: 13261584--13261617 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
13261574 TAATTAAACC
**
13261584 ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
13261618 GAAATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:13261601 original size:12 final size:12
Alignment explanation
Indices: 13261584--13261622 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13261574 TAATTAAACC
**
13261584 ATTATTATTATT
1 ATTATTATTAAA
13261596 ATTATTATTAAA
1 ATTATTATTAAA
13261608 ATTATTATTAGAA
1 ATTATTATTA-AA
13261621 AT
1 AT
13261623 GAAAATCGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:13272931 original size:15 final size:15
Alignment explanation
Indices: 13272911--13272940 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13272901 TAATCTCTTT
13272911 AATATTATTTATATA
1 AATATTATTTATATA
*
13272926 AATATTATTTTTATA
1 AATATTATTTATATA
13272941 TTATTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATATTATTTATATA
Found at i:13274146 original size:17 final size:20
Alignment explanation
Indices: 13274103--13274145 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
13274093 AATCATCATG
13274103 TAATAAATCATGCAAAAATA
1 TAATAAATCATGCAAAAATA
*
13274123 TAATAAATCATGCAAAAAAA
1 TAATAAATCATGCAAAAATA
13274143 TAA
1 TAA
13274146 AATAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (20 bp):
TAATAAATCATGCAAAAATA
Found at i:13274149 original size:22 final size:20
Alignment explanation
Indices: 13274104--13274151 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
13274094 ATCATCATGT
*
13274104 AATAAATCATGCAAAAATAT
1 AATAAATCATGCAAAAATAA
13274124 AATAAATCATGCAAAAAAATAA
1 AATAAATCATGC--AAAAATAA
13274146 AATAAA
1 AATAAA
13274152 ATAAAAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.48
22 13 0.52
ACGTcount: A:0.67, C:0.08, G:0.04, T:0.21
Consensus pattern (20 bp):
AATAAATCATGCAAAAATAA
Found at i:13275880 original size:34 final size:33
Alignment explanation
Indices: 13275842--13275924 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
13275832 AATTAAACCA
* **
13275842 AAAATAAAATCAAATCAAAATCAAAATTAAGGTT
1 AAAATAAAATCAAA-AAAAATCAAAATTAAAATT
* * *
13275876 AAAATTAACATTAAAAAAAATTAAAATTAAAATT
1 AAAA-TAAAATCAAAAAAAATCAAAATTAAAATT
*
13275910 AAAATACAATCAAAA
1 AAAATAAAATCAAAA
13275925 TTAAAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
33 8 0.21
34 23 0.59
35 8 0.21
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (33 bp):
AAAATAAAATCAAAAAAAATCAAAATTAAAATT
Found at i:13275883 original size:6 final size:6
Alignment explanation
Indices: 13275853--13275932 Score: 76
Period size: 6 Copynumber: 13.8 Consensus size: 6
13275843 AAATAAAATC
* * ** *
13275853 AAATCA AAATCA AAATTA AGGTTA AAATTA ACATTA AAA--A AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
* *
13275899 AAATTA AAATTA AAA-TA CAATCA AAATTA AAATT
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATT
13275933 TTTAGACTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 52 0.87
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (6 bp):
AAATTA
Found at i:13275897 original size:16 final size:16
Alignment explanation
Indices: 13275876--13275907 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13275866 AATTAAGGTT
*
13275876 AAAATTAACATTAAAA
1 AAAATTAAAATTAAAA
13275892 AAAATTAAAATTAAAA
1 AAAATTAAAATTAAAA
13275908 TTAAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATTAAAATTAAAA
Found at i:13275902 original size:22 final size:23
Alignment explanation
Indices: 13275842--13275932 Score: 87
Period size: 22 Copynumber: 4.0 Consensus size: 23
13275832 AATTAAACCA
* * *
13275842 AAAATAAAA-TCAAATCAAAATC
1 AAAATAAAATTAAAATTAAAATT
** *
13275864 AAAATTAAGGTTAAAATTAACATT
1 AAAA-TAAAATTAAAATTAAAATT
13275888 AAAA-AAAATTAAAATTAAAATT
1 AAAATAAAATTAAAATTAAAATT
* *
13275910 AAAATACAATCAAAATTAAAATT
1 AAAATAAAATTAAAATTAAAATT
13275933 TTTAGACTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
22 23 0.42
23 19 0.35
24 13 0.24
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAATAAAATTAAAATTAAAATT
Found at i:13285815 original size:17 final size:17
Alignment explanation
Indices: 13285793--13285830 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
13285783 CTTGATTAGC
13285793 CTTGAGAATATACTATT
1 CTTGAGAATATACTATT
13285810 CTTGAGAATATACTATT
1 CTTGAGAATATACTATT
13285827 CTTG
1 CTTG
13285831 TATGCATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (17 bp):
CTTGAGAATATACTATT
Found at i:13289151 original size:80 final size:77
Alignment explanation
Indices: 13289067--13289287 Score: 247
Period size: 80 Copynumber: 2.8 Consensus size: 77
13289057 TTGAAGTATC
13289067 AATTTTTCTTAAATAAAAATTATTAAAAA-AATTTTGAGGAAAAAGTTAAAAGTATCAATTTTTC
1 AATTTTTCTTAAATAAAAA-TA--AAAAAGAATTTTGAGGAAAAAGTTAAAAGTATCAATTTTTC
13289131 CTTAAAAAAAAAACA-T
63 CTT--AAAAAAAACATT
* *
13289147 AATTTTTTCTAAAAT-AAAATAAAAAAGGGAATTTTGAGGAAAAAGTTAAAAGTATCAAATTTTC
1 AA-TTTTTCTTAAATAAAAATAAAAAA--GAATTTTGAGGAAAAAGTTAAAAGTATCAATTTTTC
* *
13289211 CTTAAATAAAGCATT
63 CTTAAAAAAAACATT
*
13289226 AGTATTTTTC-TAAA-ACAAAATAAAAAAGAATTTTGAGAAAAAAGTTGAAAA-TATCAATTTTT
1 A--ATTTTTCTTAAATA-AAAATAAAAAAGAATTTTGAGGAAAAAGTT-AAAAGTATCAATTTTT
13289288 TTTTAGAATT
Statistics
Matches: 124, Mismatches: 7, Indels: 22
0.81 0.05 0.14
Matches are distributed among these distances:
77 5 0.04
78 36 0.29
79 11 0.09
80 60 0.48
81 12 0.10
ACGTcount: A:0.51, C:0.06, G:0.09, T:0.34
Consensus pattern (77 bp):
AATTTTTCTTAAATAAAAATAAAAAAGAATTTTGAGGAAAAAGTTAAAAGTATCAATTTTTCCTT
AAAAAAAACATT
Found at i:13293210 original size:17 final size:17
Alignment explanation
Indices: 13293190--13293237 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
13293180 AATGAAAGAA
13293190 TGAAAAAATAAGAAATG
1 TGAAAAAATAAGAAATG
13293207 TGAAAAAATGAA-AAATG
1 TGAAAAAAT-AAGAAATG
* *
13293224 AGAGAAAAAGAAGA
1 TGA-AAAAATAAGA
13293238 CTCAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (17 bp):
TGAAAAAATAAGAAATG
Found at i:13294461 original size:45 final size:45
Alignment explanation
Indices: 13294392--13294567 Score: 162
Period size: 46 Copynumber: 3.9 Consensus size: 45
13294382 TCTATAAAAA
* *
13294392 TTTTCAAATAAGAATC-TTGAAAATTTTTTATGTGAATCCCTAAAGT
1 TTTTC-AATGAGAATCTTTG-AAATTTTGTATGTGAATCCCTAAAGT
* * *
13294438 TTTTCAATTAGAATCTTTGAAATTTTGGATG-GAA-CCCTAAAAT
1 TTTTCAATGAGAATCTTTGAAATTTTGTATGTGAATCCCTAAAGT
* * * * * * *
13294481 TTTTTAATGAAAACCTTTGAAATATTGAATGTGAAACACTAAAGTT
1 TTTTCAATGAGAATCTTTGAAATTTTGTATGTGAATCCCTAAAG-T
* *
13294527 TTTTGAATGAGAATTTTTGAAATTTTGGT-TGTGAATCCCTA
1 TTTTCAATGAGAATCTTTGAAATTTT-GTATGTGAATCCCTA
13294568 GGGGTTTTTT
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
43 33 0.31
44 6 0.06
45 25 0.24
46 40 0.38
47 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (45 bp):
TTTTCAATGAGAATCTTTGAAATTTTGTATGTGAATCCCTAAAGT
Found at i:13294499 original size:43 final size:45
Alignment explanation
Indices: 13294402--13294567 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 45
13294392 TTTTCAAATA
** * * *
13294402 AGAATC-TTGAAAATTTTTTATGTGAATCCCTAAAGTTTTTCAATT
1 AGAATCTTTG-AAATTTTGGATGTGAAACCCTAAAGTTTTTTAATG
*
13294447 AGAATCTTTGAAATTTTGGATG-G-AACCCTAAAATTTTTTAATG
1 AGAATCTTTGAAATTTTGGATGTGAAACCCTAAAGTTTTTTAATG
* * * * *
13294490 AAAACCTTTGAAATATTGAATGTGAAACACTAAAGTTTTTTGAATG
1 AGAATCTTTGAAATTTTGGATGTGAAACCCTAAAGTTTTTT-AATG
* * *
13294536 AGAATTTTTGAAATTTTGGTTGTGAATCCCTA
1 AGAATCTTTGAAATTTTGGATGTGAAACCCTA
13294568 GGGGTTTTTT
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
43 34 0.35
44 2 0.02
45 30 0.31
46 31 0.32
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (45 bp):
AGAATCTTTGAAATTTTGGATGTGAAACCCTAAAGTTTTTTAATG
Found at i:13294684 original size:17 final size:17
Alignment explanation
Indices: 13294630--13294758 Score: 100
Period size: 17 Copynumber: 7.6 Consensus size: 17
13294620 ACCAAAAAAA
*
13294630 TCTTGCAATTCTTCAAT
1 TCTTGCAAATCTTCAAT
* * * *
13294647 TTTTGCATATC-TGAGT
1 TCTTGCAAATCTTCAAT
*
13294663 TCTTGCAAATATTCAAT
1 TCTTGCAAATCTTCAAT
*
13294680 TCTTGCAAATCTTCGAGT
1 TCTTGCAAATCTTC-AAT
*
13294698 TCTAGCAAATCTT-AAT
1 TCTTGCAAATCTTCAAT
* * * *
13294714 TCTGGCGAATTTTCAAAA
1 TCTTGCAAATCTTC-AAT
*
13294732 TCTTGCAAATCTTTAAT
1 TCTTGCAAATCTTCAAT
*
13294749 TTTTGCAAAT
1 TCTTGCAAAT
13294759 TTGAAAATCT
Statistics
Matches: 84, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
16 23 0.27
17 35 0.42
18 26 0.31
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (17 bp):
TCTTGCAAATCTTCAAT
Found at i:13294706 original size:35 final size:33
Alignment explanation
Indices: 13294641--13294716 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
13294631 CTTGCAATTC
* * *
13294641 TTCAATTTTTGCATATCTGAGTTCTTGCAAATA
1 TTCAATTCTTGCAAATCTGAGTTCTAGCAAATA
*
13294674 TTCAATTCTTGCAAATCTTCGAGTTCTAGCAAATC
1 TTCAATTCTTGCAAATC-T-GAGTTCTAGCAAATA
13294709 TT-AATTCT
1 TTCAATTCT
13294717 GGCGAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 15 0.41
34 7 0.19
35 15 0.41
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (33 bp):
TTCAATTCTTGCAAATCTGAGTTCTAGCAAATA
Found at i:13294766 original size:34 final size:34
Alignment explanation
Indices: 13294626--13294770 Score: 107
Period size: 34 Copynumber: 4.3 Consensus size: 34
13294616 ATGAACCAAA
* * * *
13294626 AAAATCTTGCAATTCTTCAATTTTTGCATATCTG
1 AAAATCTTGCAAATCTTCAATTCTTGCAAATTTG
** *
13294660 -AGTTCTTGCAAATATTCAATTCTTGCAAATCTTCG
1 AAAATCTTGCAAATCTTCAATTCTTGCAAAT-TT-G
** * * * *
13294695 -AGTTCTAGCAAATCTT-AATTCTGGCGAATTTTC
1 AAAATCTTGCAAATCTTCAATTCTTGC-AAATTTG
* *
13294728 AAAATCTTGCAAATCTTTAATTTTTGCAAATTTG
1 AAAATCTTGCAAATCTTCAATTCTTGCAAATTTG
13294762 AAAATCTTG
1 AAAATCTTG
13294771 AGAATCTAAA
Statistics
Matches: 87, Mismatches: 19, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
33 24 0.28
34 38 0.44
35 25 0.29
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (34 bp):
AAAATCTTGCAAATCTTCAATTCTTGCAAATTTG
Found at i:13294783 original size:16 final size:16
Alignment explanation
Indices: 13294762--13294853 Score: 78
Period size: 16 Copynumber: 5.6 Consensus size: 16
13294752 TGCAAATTTG
13294762 AAAATCTTGAGAATCT
1 AAAATCTTGAGAATCT
* *
13294778 AAAATCTTGATAACCT
1 AAAATCTTGAGAATCT
13294794 AAAATTCTT-ATGAATCT
1 AAAA-TCTTGA-GAATCT
** *
13294811 AAAAGGTTGAAAATCT
1 AAAATCTTGAGAATCT
* *
13294827 AAGCATTTTGAGAATCT
1 AA-AATCTTGAGAATCT
13294844 AAAAATCTTG
1 -AAAATCTTG
13294854 CGAACTTTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
16 28 0.48
17 28 0.48
18 2 0.03
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (16 bp):
AAAATCTTGAGAATCT
Found at i:13294994 original size:17 final size:17
Alignment explanation
Indices: 13294974--13295030 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
13294964 AATTTTTGCA
13294974 AATCTTCAATTCTTATG
1 AATCTTCAATTCTTATG
*
13294991 AATC-TCTAATTCTTACG
1 AATCTTC-AATTCTTATG
** *
13295008 AATCTAAAAGTCTTATG
1 AATCTTCAATTCTTATG
13295025 AATCTT
1 AATCTT
13295031 TAAATTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 2 0.06
17 30 0.94
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (17 bp):
AATCTTCAATTCTTATG
Found at i:13295012 original size:34 final size:34
Alignment explanation
Indices: 13294946--13295029 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 34
13294936 TACGAATATG
* * * * *
13294946 AAATTCTTGTGAAACTCTAATTTTTGCAAATCTT
1 AAATTCTTATGAATCTCTAATTCTTACAAATCTA
* *
13294980 CAATTCTTATGAATCTCTAATTCTTACGAATCTA
1 AAATTCTTATGAATCTCTAATTCTTACAAATCTA
*
13295014 AAAGTCTTATGAATCT
1 AAATTCTTATGAATCT
13295030 TTAAATTGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (34 bp):
AAATTCTTATGAATCTCTAATTCTTACAAATCTA
Found at i:13295100 original size:22 final size:22
Alignment explanation
Indices: 13295032--13295105 Score: 55
Period size: 22 Copynumber: 3.3 Consensus size: 22
13295022 ATGAATCTTT
* *
13295032 AAATTGTGAACCTTTGAATTTTG
1 AAATTGTGAATCTTTG-ATTTTC
*
13295055 AAATTGT-AAT-TTT-TTTTAACTC
1 AAATTGTGAATCTTTGATTT---TC
13295077 AAATTGTGAATCTTTGATTTTC
1 AAATTGTGAATCTTTGATTTTC
*
13295099 AACTTGT
1 AAATTGT
13295106 ATAGTGAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
19 3 0.08
21 3 0.08
22 18 0.45
23 10 0.25
24 3 0.08
25 3 0.08
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (22 bp):
AAATTGTGAATCTTTGATTTTC
Found at i:13296620 original size:25 final size:26
Alignment explanation
Indices: 13296576--13296624 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
13296566 TTTTTATTTG
* *
13296576 ATTTATTTATTAAGTTAATATTTTTT
1 ATTTATTTATTAAATAAATATTTTTT
13296602 ATTTATTT-TTAAATAAATATTTT
1 ATTTATTTATTAAATAAATATTTT
13296625 AAAGTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTATTTATTAAATAAATATTTTTT
Found at i:13306135 original size:13 final size:13
Alignment explanation
Indices: 13306117--13306142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13306107 ATAATAAGAT
13306117 AGGTCAAATTTGA
1 AGGTCAAATTTGA
13306130 AGGTCAAATTTGA
1 AGGTCAAATTTGA
13306143 TTAAGATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
AGGTCAAATTTGA
Found at i:13308337 original size:23 final size:24
Alignment explanation
Indices: 13308290--13308358 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
13308280 TTTTTTGACG
* * **
13308290 TTTTAAATTATATATTTTTAAATA
1 TTTTAAAATATTTATTTTTTTATA
13308314 -TTTAAAATATTTATTTTTTTATA
1 TTTTAAAATATTTATTTTTTTATA
*
13308337 TTTTAAAATTATTTTTTTTTTT
1 TTTTAAAA-TATTTATTTTTTT
13308359 TTTTTATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
23 19 0.50
24 7 0.18
25 12 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTATTTTTTTATA
Found at i:13308354 original size:24 final size:25
Alignment explanation
Indices: 13308304--13308358 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
13308294 AAATTATATA
13308304 TTTTTAAATATTTAAAATATTTATT
1 TTTTTAAATATTTAAAATATTTATT
* *
13308329 TTTTTATAT-TTTAAAATTATTTTTT
1 TTTTTAAATATTTAAAA-TATTTATT
13308354 TTTTT
1 TTTTT
13308359 TTTTTATGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (25 bp):
TTTTTAAATATTTAAAATATTTATT
Found at i:13308710 original size:10 final size:10
Alignment explanation
Indices: 13308695--13308724 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13308685 ATCGAATTTT
13308695 TATATTTTAA
1 TATATTTTAA
13308705 TATATTTTAA
1 TATATTTTAA
13308715 T-TATTTTAA
1 TATATTTTAA
13308724 T
1 T
13308725 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:13308721 original size:9 final size:9
Alignment explanation
Indices: 13308697--13308726 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
13308687 CGAATTTTTA
13308697 TATTTTAAT
1 TATTTTAAT
13308706 ATATTTTAAT
1 -TATTTTAAT
13308716 TATTTTAAT
1 TATTTTAAT
13308725 TA
1 TA
13308727 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:13314575 original size:28 final size:28
Alignment explanation
Indices: 13314525--13314580 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
13314515 TCAACTTCGA
13314525 TTTACATTAAATTATTAATAAAAATATT
1 TTTACATTAAATTATTAATAAAAATATT
13314553 TTTA-ATTAAATT-TTAATTTAAAAATATT
1 TTTACATTAAATTATTAA--TAAAAATATT
13314581 AATATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 14 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTACATTAAATTATTAATAAAAATATT
Found at i:13324398 original size:2 final size:2
Alignment explanation
Indices: 13324391--13324417 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13324381 CCTGCTTTCA
13324391 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13324418 CACACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13326763 original size:98 final size:97
Alignment explanation
Indices: 13326661--13326848 Score: 358
Period size: 98 Copynumber: 1.9 Consensus size: 97
13326651 CTAAAAGTTG
13326661 TTATAATTTAAATTATTAATATAATTTTTAAGGATATTAATAGGATATATAAGTTCAATCACATG
1 TTATAATTTAAATTATTAATATAATTTTTAAGGATATTAATAGGATATATAAGTTCAATCACATG
13326726 GATTAAAAATAAATCTTGTCCATTTTAGAAGGA
66 GATTAAAAAT-AATCTTGTCCATTTTAGAAGGA
*
13326759 TTATAATTTAAATTATTAATATAATTTTTAAGGATATTAATAGGATATATAAGTTCAATCTCATG
1 TTATAATTTAAATTATTAATATAATTTTTAAGGATATTAATAGGATATATAAGTTCAATCACATG
13326824 GATTAAAAATAATCTTGTCCATTTT
66 GATTAAAAATAATCTTGTCCATTTT
13326849 GAAAAGATTG
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
97 15 0.17
98 74 0.83
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.42
Consensus pattern (97 bp):
TTATAATTTAAATTATTAATATAATTTTTAAGGATATTAATAGGATATATAAGTTCAATCACATG
GATTAAAAATAATCTTGTCCATTTTAGAAGGA
Found at i:13327089 original size:50 final size:50
Alignment explanation
Indices: 13327007--13327157 Score: 194
Period size: 50 Copynumber: 3.0 Consensus size: 50
13326997 TTCAACCATA
13327007 ATTGAGAGATTTTAGGATTTAATTCCAGAATCAATTCACATTAAAATGAT
1 ATTGAGAGATTTTAGGATTTAATTCCAGAATCAATTCACATTAAAATGAT
* * **
13327057 ATTGTGAGATTTTAGGATTTAATTCCATAATCAATTGGCATTAAAAATGAT
1 ATTGAGAGATTTTAGGATTTAATTCCAGAATCAATTCACATT-AAAATGAT
*** * * *
13327108 GGGGAGAGATTTTTGGGATTTAATTTCAGAATCAATTCTCATTAAAATGA
1 ATTGAGAGA-TTTTAGGATTTAATTCCAGAATCAATTCACATTAAAATGA
13327158 AAATCAAATA
Statistics
Matches: 86, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 38 0.44
51 20 0.23
52 28 0.33
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (50 bp):
ATTGAGAGATTTTAGGATTTAATTCCAGAATCAATTCACATTAAAATGAT
Found at i:13327662 original size:26 final size:28
Alignment explanation
Indices: 13327626--13327682 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
13327616 GATCATAAGT
*
13327626 TTTTTTCATTTT-TATTCTT-A-TTTTTA
1 TTTTATCATTTTATATT-TTAAGTTTTTA
13327652 TTTTATCATTTTATATTTTAAGTTTTTA
1 TTTTATCATTTTATATTTTAAGTTTTTA
13327680 TTT
1 TTT
13327683 CATTTTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 13 0.48
27 5 0.19
28 9 0.33
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTATCATTTTATATTTTAAGTTTTTA
Found at i:13327681 original size:13 final size:12
Alignment explanation
Indices: 13327628--13327691 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
13327618 TCATAAGTTT
*
13327628 TTTTCATTTTTA
1 TTTTAATTTTTA
13327640 TTCTT-ATTTTTA
1 TT-TTAATTTTTA
13327652 TTTTATCATTTTATA
1 TTTTA--ATTTT-TA
13327667 TTTTAAGTTTTTA
1 TTTTAA-TTTTTA
*
13327680 -TTTCATTTTTA
1 TTTTAATTTTTA
13327691 T
1 T
13327692 AATTTATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
11 8 0.18
12 15 0.34
13 5 0.11
14 9 0.20
15 7 0.16
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (12 bp):
TTTTAATTTTTA
Found at i:13331722 original size:11 final size:10
Alignment explanation
Indices: 13331699--13331728 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
13331689 ATAAAAATCG
13331699 AAAAGGAAAA
1 AAAAGGAAAA
13331709 AAAAGGAGAAA
1 AAAAGGA-AAA
13331720 AAAAGGAAA
1 AAAAGGAAA
13331729 CTCAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAAGGAAAA
Found at i:13332951 original size:118 final size:118
Alignment explanation
Indices: 13332640--13332985 Score: 257
Period size: 118 Copynumber: 2.9 Consensus size: 118
13332630 CTCAACTTAG
* * ** * ** *
13332640 TCCAAATCATTTTTTTGACTTGTGGTTTCATCTCGATCATTTATTTTCGACTTCAACTCGATCCT
1 TCCAAATCATTTTCTTGACTAGTATTTTCATCTCGATCATTCATTTTTAACCTCAACTCGATCCT
** ** ** * * ** * * * ** * *
13332705 GGTTGCTTTATCTTGACTCATAGTTTCATTTCGGTCATTCAATCTCAGCTCAA
66 TATCACTTTATCTCAACTCACAATTTCATCCCGATCATTCGATTTTGGTTTAA
* * * ** *
13332758 TCTAGATCATTTTCTTGACTCGTATTTTCATCTCGATCATTCATTTTTAACCTTGACTCGGTCCT
1 TCCAAATCATTTTCTTGACTAGTATTTTCATCTCGATCATTCATTTTTAACCTCAACTCGATCCT
** ** *
13332823 TATCGTTTTATCTTGACTCGCAATTTCATCCCGATCATTCGATTTTGGTTTAA
66 TATCACTTTATCTCAACTCACAATTTCATCCCGATCATTCGATTTTGGTTTAA
* * *
13332876 TCCAAATCATTTTCTTGACTAGCTATTTT-GTC-CTGATCATTCATTTTTTACCTCAACTTGATC
1 TCCAAATCATTTTCTTGACTAG-TATTTTCATCTC-GATCATTCATTTTTAACCTCAACTCGATC
** * *
13332939 C-TAGTCACTTTATCTCAACTCATGATTTTATCCCGATCATTTGATTT
64 CTTA-TCACTTTATCTCAACTCACAATTTCATCCCGATCATTCGATTT
13332986 CAACTTAGTC
Statistics
Matches: 178, Mismatches: 47, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
117 3 0.02
118 169 0.95
119 6 0.03
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (118 bp):
TCCAAATCATTTTCTTGACTAGTATTTTCATCTCGATCATTCATTTTTAACCTCAACTCGATCCT
TATCACTTTATCTCAACTCACAATTTCATCCCGATCATTCGATTTTGGTTTAA
Found at i:13333311 original size:17 final size:18
Alignment explanation
Indices: 13333289--13333347 Score: 77
Period size: 17 Copynumber: 3.4 Consensus size: 18
13333279 CAAATTTGAA
13333289 AAATCTTTGT-AAACTTG
1 AAATCTTTGTGAAACTTG
* *
13333306 AAATCTTTGTGAATCTAG
1 AAATCTTTGTGAAACTTG
*
13333324 -AACCTTTGTGAAACTTG
1 AAATCTTTGTGAAACTTG
13333341 AAATCTT
1 AAATCTT
13333348 GCGAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 24 0.71
18 10 0.29
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATCTTTGTGAAACTTG
Found at i:13333408 original size:86 final size:87
Alignment explanation
Indices: 13333247--13333463 Score: 249
Period size: 86 Copynumber: 2.5 Consensus size: 87
13333237 TTACCTCTGA
* * * *
13333247 AAACTTGAAATCTTGAAAATCTTTCTTTTTTGCAAATTTGAAAAATCTTTGTAAACTTGAAATCT
1 AAACTTGAAATCTTGAGAATCTTTTTTTTTTGCAAATCTGAAAAATCCTTGTAAACTTGAAATCT
* *
13333312 TTGTGAATCTAGAACCTTTGTG
66 TTGCGAATCTAGAACCTTTGCG
* * ** * *
13333334 AAACTTGAAATCTTGCGAATATTTTTTTTTTGCAAATCTG-AAGGTCCTTGTGAACTTTAAATCT
1 AAACTTGAAATCTTGAGAATCTTTTTTTTTTGCAAATCTGAAAAATCCTTGTAAACTTGAAATCT
* *
13333398 TTGCGAATCTATAACTTTTGCG
66 TTGCGAATCTAGAACCTTTGCG
* * * * *
13333420 AAACTCGAAATCTTGTGAATCTTCTATTTTTGCGAATCT-AAAAA
1 AAACTTGAAATCTTGAGAATCTTTTTTTTTTGCAAATCTGAAAAA
13333464 CTTTTGTGAA
Statistics
Matches: 107, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
86 72 0.67
87 35 0.33
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (87 bp):
AAACTTGAAATCTTGAGAATCTTTTTTTTTTGCAAATCTGAAAAATCCTTGTAAACTTGAAATCT
TTGCGAATCTAGAACCTTTGCG
Found at i:13334042 original size:52 final size:52
Alignment explanation
Indices: 13333934--13334080 Score: 174
Period size: 51 Copynumber: 2.8 Consensus size: 52
13333924 AACCATGATT
* * * **
13333934 GAGAGATTTTTTATATTTAATTCCAAAATCAATTCACATT-AAAATTATATT
1 GAGAGATTTTTTAGATTTAATTTCAAAATCAATTCACATTAAAAATGATAGG
* **
13333985 GAGAGATTTTTTAGATTTAATTTCAGAATCAATTGGCATTAAAAATGATAGG
1 GAGAGATTTTTTAGATTTAATTTCAAAATCAATTCACATTAAAAATGATAGG
*
13334037 GAGAGA-TTTTTAGGATTTAATCTT-AAAATCAATTCTCATTAAAA
1 GAGAGATTTTTTA-GATTTAAT-TTCAAAATCAATTCACATTAAAA
13334081 CGAAAATCAA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
51 41 0.50
52 39 0.48
53 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.39
Consensus pattern (52 bp):
GAGAGATTTTTTAGATTTAATTTCAAAATCAATTCACATTAAAAATGATAGG
Found at i:13334576 original size:19 final size:19
Alignment explanation
Indices: 13334549--13334641 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
13334539 CAATCGCAAG
*
13334549 TTTTCTTTTTTCA-TTTTAT
1 TTTTATTTTTT-ATTTTTAT
13334568 TTTTATTTTTTATTTTTAT
1 TTTTATTTTTTATTTTTAT
* *
13334587 TTTATCATTTTATATTTTAAGT
1 TTT-T-ATTTTTTATTTTTA-T
* *
13334609 TTTT-TATTTCATTTTTAT
1 TTTTATTTTTTATTTTTAT
* *
13334627 TATT-TTTTATATTTT
1 TTTTATTTTTTATTTT
13334642 GTTGATTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
18 13 0.22
19 28 0.47
20 1 0.02
21 13 0.22
22 4 0.07
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (19 bp):
TTTTATTTTTTATTTTTAT
Found at i:13334641 original size:7 final size:7
Alignment explanation
Indices: 13334561--13334632 Score: 57
Period size: 6 Copynumber: 10.7 Consensus size: 7
13334551 TTCTTTTTTC
13334561 ATTTTAT
1 ATTTTAT
13334568 -TTTTAT
1 ATTTTAT
13334574 -TTTT-T
1 ATTTTAT
13334579 ATTTT-T
1 ATTTTAT
13334585 ATTTTAT
1 ATTTTAT
13334592 CATTTTAT
1 -ATTTTAT
13334600 ATTTTA-
1 ATTTTAT
*
13334606 AGTTTTTT
1 A-TTTTAT
*
13334614 ATTTCAT
1 ATTTTAT
13334621 -TTTTATT
1 ATTTTA-T
13334628 ATTTT
1 ATTTT
13334633 TTATATTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
5 1 0.02
6 25 0.46
7 16 0.30
8 12 0.22
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (7 bp):
ATTTTAT
Found at i:13336595 original size:16 final size:17
Alignment explanation
Indices: 13336574--13336606 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13336564 AAAATTTTTG
13336574 AAAAATT-TTGATATAT
1 AAAAATTATTGATATAT
13336590 AAAAATTAATTGATATA
1 AAAAATT-ATTGATATA
13336607 GTATTAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAAATTATTGATATAT
Found at i:13338294 original size:62 final size:59
Alignment explanation
Indices: 13338228--13338514 Score: 265
Period size: 62 Copynumber: 4.8 Consensus size: 59
13338218 AAAGAATGAT
13338228 TTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTTCGA
1 TTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAA-TTT--A
*** *
13338290 TTTTTCAAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTT-
1 TTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTA
** **
13338350 TGATTTCAAGG--AA-TG--A-TTTC--CTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTA
1 TTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTGGAAATTTA
*
13338405 TTTTTCTTTTAAGGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA
1 -TTTT-TTTT-AGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
* * *
13338467 ---TTCTTAAGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTT
1 TTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTT
13338515 TAGAATTTTT
Statistics
Matches: 192, Mismatches: 16, Indels: 39
0.78 0.06 0.16
Matches are distributed among these distances:
52 16 0.08
54 19 0.10
55 1 0.01
56 38 0.20
57 12 0.06
58 6 0.03
60 9 0.05
61 2 0.01
62 56 0.29
63 4 0.02
64 14 0.07
66 15 0.08
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (59 bp):
TTTTTTTTAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA
Found at i:13338506 original size:27 final size:27
Alignment explanation
Indices: 13338419--13338506 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
13338409 TCTTTTAAGG
13338419 AAAATTGATACTTTCAACTTTTCCCTA
1 AAAATTGATACTTTCAACTTTTCCCTA
** * * * *
13338446 AAAA-T-ATTTTTTGGAAATTTATTCTTAA
1 AAAATTGATACTTT-CAACTTT-TCCCT-A
13338474 GAAAATTGATACTTTCAACTTTTCCCTA
1 -AAAATTGATACTTTCAACTTTTCCCTA
13338502 AAAAT
1 AAAAT
13338507 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 12 0.28
28 2 0.05
29 7 0.16
30 6 0.14
31 5 0.12
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (27 bp):
AAAATTGATACTTTCAACTTTTCCCTA
Found at i:13338527 original size:118 final size:119
Alignment explanation
Indices: 13338238--13338534 Score: 319
Period size: 118 Copynumber: 2.5 Consensus size: 119
13338228 TTTTTTTTAG
* * **
13338238 GAAAATTGATACTTTCAACTTTTCCCCAAAA-ATATTTTTTGGAAATTTTCGATTTTTCAAAGGA
1 GAAAATTGATACTTTCAACTTTTCCCAAAAATATATTTTTTGGAAATTTT--TTTTTTTTAAGGA
*
13338302 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTTCAA
64 AAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTTGATTTCAA
* *
13338359 G-GAA-TG--A-TTTC--CTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GAAAATTGATACTTTCAACTTTT-CCCAAAAATA--TATTTTTTGGAAATTT-TTTTT-TTTTAA
* *
13338417 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAA-TTT-ATTCTTAA
61 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATT-TCAA
* *
13338474 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTAGAATTTTTTTTATTTTTA
1 GAAAATTGATACTTTCAACTTTTCCC-AAAAATATATTTTTTGGAAATTTTTTT-TTTTTA
13338535 TTTAAAGAAA
Statistics
Matches: 147, Mismatches: 13, Indels: 34
0.76 0.07 0.18
Matches are distributed among these distances:
114 8 0.05
115 14 0.10
116 17 0.12
117 6 0.04
118 53 0.36
119 13 0.09
120 20 0.14
121 4 0.03
122 12 0.08
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (119 bp):
GAAAATTGATACTTTCAACTTTTCCCAAAAATATATTTTTTGGAAATTTTTTTTTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTGATTTCAA
Found at i:13338613 original size:12 final size:11
Alignment explanation
Indices: 13338593--13338663 Score: 54
Period size: 11 Copynumber: 6.2 Consensus size: 11
13338583 AACCTAATCT
*
13338593 AATAAATAAAA
1 AATAAAAAAAA
13338604 AATAAAATAAACA
1 AATAAAA-AAA-A
*
13338617 AATAAACAAAGA
1 AATAAA-AAAAA
13338629 AAT-AAAAAAA
1 AATAAAAAAAA
**
13338639 AATTCAAAAAA
1 AATAAAAAAAA
*
13338650 ATTCAAAAAAAA
1 AAT-AAAAAAAA
13338662 AA
1 AA
13338664 CCTGGAGCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
10 7 0.15
11 16 0.34
12 14 0.30
13 9 0.19
14 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.01, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:13338649 original size:9 final size:10
Alignment explanation
Indices: 13338634--13338660 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
13338624 AAAGAAATAA
13338634 AAAAAAATTC
1 AAAAAAATTC
13338644 AAAAAAATTC
1 AAAAAAATTC
13338654 AAAAAAA
1 AAAAAAA
13338661 AAACCTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:13339005 original size:19 final size:19
Alignment explanation
Indices: 13338981--13339026 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13338971 GGACACCGGT
*
13338981 GCCGGATTCTGGGAAA-GTC
1 GCCGGAATCT-GGAAATGTC
*
13339000 GCCGGAATCTGGAAATTTC
1 GCCGGAATCTGGAAATGTC
13339019 GCCGGAAT
1 GCCGGAAT
13339027 TTGGCCGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (19 bp):
GCCGGAATCTGGAAATGTC
Found at i:13340076 original size:50 final size:48
Alignment explanation
Indices: 13339988--13340081 Score: 170
Period size: 50 Copynumber: 1.9 Consensus size: 48
13339978 TAAATTGCTC
13339988 CTCTAAACAGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTGTTT
1 CTCTAAACAGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTGTTT
13340036 CTCTAAACAGAGGCAACGGAACTTTGGAAAAATAAATTGCTCCTCT
1 CTCTAAACAGAGGCAAC-GAAC-TTGGAAAAATAAATTGCTCCTCT
13340082 AAACAGAGGC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 17 0.39
49 4 0.09
50 23 0.52
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (48 bp):
CTCTAAACAGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTGTTT
Found at i:13340133 original size:42 final size:42
Alignment explanation
Indices: 13339901--13340134 Score: 291
Period size: 42 Copynumber: 5.5 Consensus size: 42
13339891 TTTTACCAAA
* *
13339901 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
* *
13339943 GCTCCTCTAAACAGAGGTACCACGACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
13339984 GCTCCTCTAAACAGAGGCA--ACGAAC-TTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGGAAAAATAAATT
13340024 GCTCCTCTGTTTCTCTAAACAGAGGCA--ACGGAACTTTGGAAAAATAAATT
1 G---CTC-----CTCTAAACAGAGGCACCAC-G-ACTTTGGAAAAATAAATT
13340074 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
13340116 GCTCCTCTAAACAGAGGCA
1 GCTCCTCTAAACAGAGGCA
13340135 ACGAACTTGG
Statistics
Matches: 174, Mismatches: 4, Indels: 28
0.84 0.02 0.14
Matches are distributed among these distances:
39 7 0.04
40 12 0.07
41 28 0.16
42 81 0.47
43 4 0.02
44 2 0.01
47 3 0.02
48 17 0.10
49 4 0.02
50 16 0.09
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
Found at i:13340153 original size:131 final size:130
Alignment explanation
Indices: 13339905--13340147 Score: 407
Period size: 131 Copynumber: 1.8 Consensus size: 130
13339895 ACCAAAGCTC
* * *
13339905 CTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACT
1 CTCTAAACAGAGGCA-CACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACT
*
13339970 TTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTGTT
65 TTGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTGTT
13340035 T
130 T
13340036 CTCTAAACAGAGGCA-ACGGAACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 CTCTAAACAGAGGCACAC-G-ACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGAC
13340100 TTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
64 TTTGG-AAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAA
13340148 GTAAATACTC
Statistics
Matches: 105, Mismatches: 4, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
129 2 0.02
130 1 0.01
131 61 0.58
132 41 0.39
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (130 bp):
CTCTAAACAGAGGCACACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACGACTT
TGGAAAATAAATTGCTCCTCTAAACAGAGGCAACGAACTTGGAAAAATAAATTGCTCCTCTGTTT
Found at i:13341192 original size:8 final size:7
Alignment explanation
Indices: 13341190--13341296 Score: 135
Period size: 7 Copynumber: 14.7 Consensus size: 7
13341180 TTTTTTCCAT
*
13341190 TTTTTCC
1 TTTTTCA
13341197 TTTTTCA
1 TTTTTCA
13341204 TTTTTTCA
1 -TTTTTCA
13341212 TTTTTCA
1 TTTTTCA
13341219 TTTTTCCA
1 TTTTT-CA
13341227 TTTTTCA
1 TTTTTCA
13341234 TTTTTCA
1 TTTTTCA
13341241 TTTTTCA
1 TTTTTCA
* *
13341248 TATTCCA
1 TTTTTCA
13341255 -TTTTCA
1 TTTTTCA
13341261 TTTTTCA
1 TTTTTCA
13341268 TTTTTCCA
1 TTTTT-CA
13341276 TTTTTCCA
1 TTTTT-CA
13341284 TTTTGTCA
1 TTTT-TCA
13341292 TTTTT
1 TTTTT
13341297 TTTCAAGCAT
Statistics
Matches: 90, Mismatches: 5, Indels: 10
0.86 0.05 0.10
Matches are distributed among these distances:
6 4 0.04
7 51 0.57
8 34 0.38
9 1 0.01
ACGTcount: A:0.13, C:0.18, G:0.01, T:0.68
Consensus pattern (7 bp):
TTTTTCA
Found at i:13341200 original size:15 final size:15
Alignment explanation
Indices: 13341181--13341297 Score: 102
Period size: 15 Copynumber: 7.9 Consensus size: 15
13341171 TTTCCTTTTT
13341181 TTTTTCCATTTTTTCC
1 TTTTT-CATTTTTTCC
*
13341197 TTTTTCATTTTTTCA
1 TTTTTCATTTTTTCC
13341212 TTTTTCA-TTTTTCC
1 TTTTTCATTTTTTCC
*
13341226 ATTTTTCA-TTTTTCA
1 -TTTTTCATTTTTTCC
*
13341241 TTTTTCA--TATTCC
1 TTTTTCATTTTTTCC
* *
13341254 ATTTTCA-TTTTTCA
1 TTTTTCATTTTTTCC
13341268 TTTTTCCA-TTTTTCC
1 TTTTT-CATTTTTTCC
13341283 ATTTTGTCATTTTTT
1 -TTTT-TCATTTTTT
13341298 TTCAAGCATA
Statistics
Matches: 85, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
13 10 0.12
14 21 0.25
15 37 0.44
16 11 0.13
17 6 0.07
ACGTcount: A:0.13, C:0.18, G:0.01, T:0.68
Consensus pattern (15 bp):
TTTTTCATTTTTTCC
Found at i:13345466 original size:59 final size:60
Alignment explanation
Indices: 13345366--13345651 Score: 339
Period size: 59 Copynumber: 4.7 Consensus size: 60
13345356 TTTTTTTTAG
* ****
13345366 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTTGAAAATTTATTTC-TAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTTAA
* *
13345425 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTT-ATTTCTTAA
* *
13345486 GGAAAATTAATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGAAAATTTA--TTTC--TTA
13345551 A
60 A
* * *
13345552 GGAAAATTGATACTTTTAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTTAA
* *
13345609 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT
13345652 AGAATTTTTT
Statistics
Matches: 201, Mismatches: 15, Indels: 22
0.84 0.06 0.09
Matches are distributed among these distances:
57 38 0.19
59 41 0.20
60 13 0.06
61 41 0.20
62 30 0.15
63 3 0.01
66 35 0.17
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTCTTAA
Found at i:13345775 original size:20 final size:19
Alignment explanation
Indices: 13345733--13345781 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
13345723 CTAATCTAAT
13345733 AAATAAAAAATAAAAAATA
1 AAATAAAAAATAAAAAATA
*
13345752 AAATAAACAAATAAACAAA-G
1 AAATAAA-AAATAAA-AAATA
13345772 AAATAAAAAA
1 AAATAAAAAA
13345782 AAATTCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 10 0.37
20 14 0.52
21 3 0.11
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (19 bp):
AAATAAAAAATAAAAAATA
Found at i:13346222 original size:20 final size:20
Alignment explanation
Indices: 13346183--13346225 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13346173 GGAAGTCGGT
*
13346183 CGGTTTCTGGGAATATTCGC
1 CGGTTTCTGGGAATACTCGC
* *
13346203 CGGTTTCTGGGATTCCTCGC
1 CGGTTTCTGGGAATACTCGC
13346223 CGG
1 CGG
13346226 AAACTGGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.26, G:0.33, T:0.33
Consensus pattern (20 bp):
CGGTTTCTGGGAATACTCGC
Found at i:13347199 original size:23 final size:24
Alignment explanation
Indices: 13347164--13347211 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 24
13347154 TCATTAGCTC
13347164 TTTT-TTTTTT-TTTTTT-ACTT-
1 TTTTCTTTTTTGTTTTTTCACTTA
13347184 TTTTCTTTTTTGTTTTTTCACTTA
1 TTTTCTTTTTTGTTTTTTCACTTA
13347208 TTTT
1 TTTT
13347212 TTTAATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.17
21 6 0.25
22 6 0.25
23 4 0.17
24 4 0.17
ACGTcount: A:0.06, C:0.08, G:0.02, T:0.83
Consensus pattern (24 bp):
TTTTCTTTTTTGTTTTTTCACTTA
Found at i:13347381 original size:22 final size:22
Alignment explanation
Indices: 13347339--13347382 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13347329 TTATAACAAA
* *
13347339 CAAAACCAATTAATATGGATGG
1 CAAAACCAATCAATATCGATGG
13347361 CAAAA-CAATCAATATCCGATGG
1 CAAAACCAATCAATAT-CGATGG
13347383 GTTTCAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.20
Consensus pattern (22 bp):
CAAAACCAATCAATATCGATGG
Found at i:13350389 original size:100 final size:101
Alignment explanation
Indices: 13350211--13350412 Score: 316
Period size: 100 Copynumber: 2.0 Consensus size: 101
13350201 AATGTGGAAA
*
13350211 TGATTCTATGACTTAAGTCATTGGCCATTAAACAAGATCACAAACAAAAATTATTCGGTTCCACA
1 TGATTCTATGACTTAAGTCATTGGCCATTAAACAAGATCACAAACAAAAATTATTCAGTTCCACA
13350276 ATGCTAATCGTTCACACC-AAATGCAATAATTCCTC
66 ATGCTAATCGTTCACACCAAAATGCAATAATTCCTC
* * ** *
13350311 TGATTCTCTGACTTGAGTCATTGGCCATTAAACAAGATCACAAATGAAAATTATTCAGTTCTACA
1 TGATTCTATGACTTAAGTCATTGGCCATTAAACAAGATCACAAACAAAAATTATTCAGTTCCACA
* * *
13350376 ATGTTAATTGTTCACACCAAAATGCAATAATTTCTC
66 ATGCTAATCGTTCACACCAAAATGCAATAATTCCTC
13350412 T
1 T
13350413 CTGAAAGTTG
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
100 75 0.82
101 17 0.18
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (101 bp):
TGATTCTATGACTTAAGTCATTGGCCATTAAACAAGATCACAAACAAAAATTATTCAGTTCCACA
ATGCTAATCGTTCACACCAAAATGCAATAATTCCTC
Found at i:13352483 original size:16 final size:16
Alignment explanation
Indices: 13352458--13352491 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13352448 ATACTATTTT
*
13352458 AAAAAATTAAAAATAG
1 AAAAAATTAAAAAGAG
*
13352474 AAAAACTTAAAAAGAG
1 AAAAAATTAAAAAGAG
13352490 AA
1 AA
13352492 CTTGAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.15
Consensus pattern (16 bp):
AAAAAATTAAAAAGAG
Found at i:13353991 original size:19 final size:20
Alignment explanation
Indices: 13353954--13353992 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13353944 CCATTTTTTT
*
13353954 ATTTTTTTAATTTAGTAAATA
1 ATTTTTTGAATTTA-TAAATA
13353975 ATTTTTTGAATTT-TAAAT
1 ATTTTTTGAATTTATAAAT
13353993 TTTTTGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
ATTTTTTGAATTTATAAATA
Found at i:13354217 original size:3 final size:3
Alignment explanation
Indices: 13354209--13354251 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
13354199 GGCTCATTGA
13354209 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13354252 TTAAAACACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13355197 original size:19 final size:19
Alignment explanation
Indices: 13355173--13355235 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
13355163 CATATATAAA
13355173 ATTATATTTTAAATTAATT
1 ATTATATTTTAAATTAATT
*
13355192 ATTATAATTTAAATTTATATT
1 ATTATATTTTAAA-TTA-ATT
* *
13355213 ATTATATTAATAAAATAATT
1 ATTATATT-TTAAATTAATT
13355233 ATT
1 ATT
13355236 TAATATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.32
20 9 0.24
21 12 0.32
22 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATATTTTAAATTAATT
Found at i:13355231 original size:32 final size:32
Alignment explanation
Indices: 13355169--13355232 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
13355159 AGTACATATA
**
13355169 TAAAATTATATTTTAAATTAATTATTATAATT
1 TAAAATTATATTTTAAATTAATTAAAATAATT
* *
13355201 TAAATTTATATTATTATATTAA-TAAAATAATT
1 TAAAATTATATT-TTAAATTAATTAAAATAATT
13355233 ATTTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAAATTATATTTTAAATTAATTAAAATAATT
Found at i:13355237 original size:29 final size:32
Alignment explanation
Indices: 13355204--13355279 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 32
13355194 TATAATTTAA
13355204 ATTTATAT-TATT-ATATTAAT-AAAATAAT-T
1 ATTTATATATATTAAT-TTAATAAAAATAATAT
*
13355233 ATTTA-ATATATTAATTTAATAAAAATATTAT
1 ATTTATATATATTAATTTAATAAAAATAATAT
13355264 ATTTATATATAATTAA
1 ATTTATATAT-ATTAA
13355280 GATATAATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 2 0.05
29 14 0.35
30 9 0.22
31 6 0.15
32 4 0.10
33 5 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
ATTTATATATATTAATTTAATAAAAATAATAT
Found at i:13355253 original size:24 final size:25
Alignment explanation
Indices: 13355196--13355254 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
13355186 TTAATTATTA
* *
13355196 TAATTTAA-ATTTATATTATTATAT
1 TAATTTAATAATTATATTAATATAT
**
13355220 TAATAAAATAATTAT-TTAATATAT
1 TAATTTAATAATTATATTAATATAT
13355244 TAATTTAATAA
1 TAATTTAATAA
13355255 AAATATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TAATTTAATAATTATATTAATATAT
Found at i:13355772 original size:30 final size:30
Alignment explanation
Indices: 13355711--13355772 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
13355701 AATGAATAAG
** **
13355711 TTATATATATTATTATTTTTAATTTTATAT
1 TTATATATATTATTATTAATAAAATTATAT
13355741 TTATATATATTA-TATTAATAAAATTATTAT
1 TTATATATATTATTATTAATAAAATTA-TAT
13355771 TT
1 TT
13355773 GAAACTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTATATATATTATTATTAATAAAATTATAT
Found at i:13364432 original size:2 final size:2
Alignment explanation
Indices: 13364425--13364462 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13364415 GTAATTTCTT
13364425 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
13364463 AAATATTCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13366672 original size:11 final size:11
Alignment explanation
Indices: 13366658--13366683 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13366648 ATCAATTTAG
13366658 AATATTACTAA
1 AATATTACTAA
13366669 AATATTACTAA
1 AATATTACTAA
13366680 AATA
1 AATA
13366684 ATATCATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATTACTAA
Found at i:13380895 original size:21 final size:20
Alignment explanation
Indices: 13380870--13380913 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13380860 TCATTCGATT
13380870 TTTTATATTATTTGAATTGAA
1 TTTTATATTATTTG-ATTGAA
* *
13380891 TTTTATTTTATTTGATTTAA
1 TTTTATATTATTTGATTGAA
13380911 TTT
1 TTT
13380914 ATCAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTATATTATTTGATTGAA
Found at i:13380977 original size:38 final size:40
Alignment explanation
Indices: 13380925--13381005 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 40
13380915 TCAATTTTTT
*
13380925 AATTTTAATTTTTATTTTATAT-AAAATTTTAATATAA-ATA
1 AATTTTAA-TTTTATTTTATATAAAAATTTGAA-ATAATATA
*
13380965 AATTTTAA-TTTATTTTTTATAAAAATTTGAAATAATATA
1 AATTTTAATTTTATTTTATATAAAAATTTGAAATAATATA
13381004 AA
1 AA
13381006 AAAATAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
38 15 0.41
39 14 0.38
40 8 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (40 bp):
AATTTTAATTTTATTTTATATAAAAATTTGAAATAATATA
Found at i:13381005 original size:39 final size:40
Alignment explanation
Indices: 13380925--13381005 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 40
13380915 TCAATTTTTT
*
13380925 AATTTTAATTTTTATTTTATATAAAATTTTAATATAAATA
1 AATTTTAATTTTTATTTTATATAAAATTTGAATATAAATA
13380965 AATTTTAATTTATT-TTTTATA-AAAATTTGAA-ATAATATA
1 AATTTTAATTT-TTATTTTATATAAAATTTGAATATAA-ATA
13381004 AA
1 AA
13381006 AAAATAACAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
38 4 0.11
39 14 0.37
40 18 0.47
41 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (40 bp):
AATTTTAATTTTTATTTTATATAAAATTTGAATATAAATA
Found at i:13384782 original size:24 final size:23
Alignment explanation
Indices: 13384750--13384804 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
13384740 TATTTACAAA
*
13384750 TTTTTTTTTGAATATGTA-TTTGT
1 TTTTTTTTTAAATAT-TAGTTTGT
13384773 TTTTTATTTTAAATATTATGTTTGT
1 TTTTT-TTTTAAATATTA-GTTTGT
13384798 TTTTTTT
1 TTTTTTT
13384805 AAAACAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 7 0.25
24 11 0.39
25 10 0.36
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTAAATATTAGTTTGT
Found at i:13384833 original size:17 final size:19
Alignment explanation
Indices: 13384799--13384836 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13384789 TATGTTTGTT
*
13384799 TTTTTTAAAACAGAAAATA
1 TTTTTAAAAACAGAAAATA
13384818 TTTTTAAAAAC-G-AAATA
1 TTTTTAAAAACAGAAAATA
13384835 TT
1 TT
13384837 AGTTTGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 10 0.56
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTTTAAAAACAGAAAATA
Found at i:13387383 original size:35 final size:35
Alignment explanation
Indices: 13387311--13387383 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
13387301 CATAAATCTA
* *
13387311 TTTCAAAAATGTAATATAACTTATTGGAAATAGAT
1 TTTCAAAAATGTAATATAACTTATTGAAAATACAT
*
13387346 TTTCAAAAA-GTAATTATAACTT-TTCGAAAATCCAT
1 TTTCAAAAATGTAA-TATAACTTATT-GAAAATACAT
13387381 TTT
1 TTT
13387384 TGTAAGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 6 0.18
35 27 0.82
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (35 bp):
TTTCAAAAATGTAATATAACTTATTGAAAATACAT
Found at i:13390055 original size:18 final size:19
Alignment explanation
Indices: 13390021--13390057 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13390011 GTTCTGCTTC
*
13390021 TTTCTTTTCTCAGTTTTAA
1 TTTCTTTTCTAAGTTTTAA
13390040 TTTCTTTTC-AAGTTTTAA
1 TTTCTTTTCTAAGTTTTAA
13390058 AAAACCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTCTTTTCTAAGTTTTAA
Found at i:13391672 original size:2 final size:2
Alignment explanation
Indices: 13391667--13391692 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13391657 TGTGTGTGTC
13391667 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
13391693 AGGGTAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13398739 original size:18 final size:19
Alignment explanation
Indices: 13398715--13398765 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13398705 TAATCAATTG
*
13398715 AATAATTAATTATTATATT
1 AATAATTAATTATAATATT
*
13398734 -ATAATTAAATTATAATTTT
1 AATAATT-AATTATAATATT
13398753 AAATAATTAATTA
1 -AATAATTAATTA
13398766 ACAACTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.22
19 10 0.37
20 5 0.19
21 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAATTAATTATAATATT
Found at i:13398783 original size:18 final size:18
Alignment explanation
Indices: 13398760--13398794 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13398750 TTTAAATAAT
13398760 TAATT-AACAACTTAAATA
1 TAATTAAACAA-TTAAATA
13398778 TAATTAAACAATTAAAT
1 TAATTAAACAATTAAAT
13398795 TCACACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATTAAACAATTAAATA
Found at i:13402705 original size:11 final size:11
Alignment explanation
Indices: 13402691--13402721 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13402681 TTAAAAATAT
13402691 ATATTAAATGC
1 ATATTAAATGC
*
13402702 ATATTAAATGG
1 ATATTAAATGC
13402713 ATATTAAAT
1 ATATTAAAT
13402722 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (11 bp):
ATATTAAATGC
Done.