Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 149 of 235
Found at i:50029729 original size:21 final size:22
Alignment explanation
Indices: 50029692--50029836 Score: 87
Period size: 21 Copynumber: 6.8 Consensus size: 22
50029682 AACTAAAAAT
*
50029692 TGAAATTAAATT--AAATGAAA
1 TGAAATAAAATTAAAAATGAAA
50029712 TGAAAT-AAATTAAAAATGAAA
1 TGAAATAAAATTAAAAATGAAA
*
50029733 TGAAATGAACAA--AAAATTGAAA
1 TGAAAT-AA-AATTAAAAATGAAA
50029755 TGAAAT-AAA-TAAAAATTGAAA
1 TGAAATAAAATTAAAAA-TGAAA
* * * *
50029776 TGAAAT-GAGTTGATAATGAAA
1 TGAAATAAAATTAAAAATGAAA
* *
50029797 TGAAAATTTCAAA-T-GAAATGAAA
1 TG-AAA--TAAAATTAAAAATGAAA
50029820 TGAAAT-AAATTAAAAAT
1 TGAAATAAAATTAAAAAT
50029837 TAAAAATTGA
Statistics
Matches: 100, Mismatches: 11, Indels: 27
0.72 0.08 0.20
Matches are distributed among these distances:
19 10 0.10
20 13 0.13
21 37 0.37
22 25 0.25
23 10 0.10
24 4 0.04
25 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.26
Consensus pattern (22 bp):
TGAAATAAAATTAAAAATGAAA
Found at i:50029848 original size:34 final size:31
Alignment explanation
Indices: 50029816--50029890 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 31
50029806 CAAATGAAAT
*
50029816 GAAATGAAATAAATTAAAAATTAAAAATTGAAAT
1 GAAATGAAATAAA-TAAAAATT-GAAA-TGAAAT
* *
50029850 GAAATGAAATAATTTAAAAGTTGAAATGAAAT
1 GAAATGAAATAA-ATAAAAATTGAAATGAAAT
50029882 GAAAT-AAAT
1 GAAATGAAAT
50029891 TTATTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 4 0.11
32 11 0.30
33 3 0.08
34 19 0.51
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (31 bp):
GAAATGAAATAAATAAAAATTGAAATGAAAT
Found at i:50029849 original size:6 final size:5
Alignment explanation
Indices: 50029554--50029890 Score: 114
Period size: 5 Copynumber: 66.0 Consensus size: 5
50029544 TAATAATTAA
* * *
50029554 GAAAT GAAA- AAAATT GAAAT GAAAT GAAAT -AAA- -AAAA GAAGT GAAACT
1 GAAAT GAAAT GAAA-T GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA-T
* * * * *
50029602 AAAAATT GAAAT GAAAT -AAATT CAAAAG GAAAT TAAAT GAAA- -AATT
1 -GAAA-T GAAAT GAAAT GAAA-T -GAAAT GAAAT GAAAT GAAAT GAAAT
* * *
50029648 GAAAT TAAAT GAAAT -AAAT TAAA- -AAAT GAAAT GAAACT AAAAATT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA-T -GAAA-T
* * * *
50029693 GAAAT TAAAT TAAAT GAAAT GAAAT -AAATT AAAAAT GAAAT GAAAT GAACAA
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAA-T -GAAAT GAAAT GAAAT GAA-AT
* * **
50029745 AAAATT GAAAT GAAAT -AAAT AAAAATT GAAAT GAAAT GAGTT GATAAT
1 GAAA-T GAAAT GAAAT GAAAT -GAAA-T GAAAT GAAAT GAAAT GA-AAT
* * *
50029793 GAAAT GAAAATTT CAAAT GAAAT GAAAT GAAAT -AAATT AAAAAT TAAA-
1 GAAAT G-AAA--T GAAAT GAAAT GAAAT GAAAT GAAA-T -GAAAT GAAAT
* * *
50029841 -AATT GAAAT GAAAT GAAAT -AATTT AAAAGTT GAAAT GAAAT GAAAT
1 GAAAT GAAAT GAAAT GAAAT GAA-AT GAAA--T GAAAT GAAAT GAAAT
50029887 -AAAT
1 GAAAT
50029891 TTATTATTTA
Statistics
Matches: 255, Mismatches: 40, Indels: 75
0.69 0.11 0.20
Matches are distributed among these distances:
3 10 0.04
4 29 0.11
5 157 0.62
6 33 0.13
7 25 0.10
8 1 0.00
ACGTcount: A:0.62, C:0.01, G:0.12, T:0.24
Consensus pattern (5 bp):
GAAAT
Found at i:50029908 original size:66 final size:58
Alignment explanation
Indices: 50029672--50029891 Score: 170
Period size: 59 Copynumber: 3.7 Consensus size: 58
50029662 TAAATTAAAA
* * * * *
50029672 AATGAAATG-AAACTAAAAATTGAAATTAAATTAAATGAAATGAAATAAATTAAAAA-TGA-
1 AATGAAATGAAAATTTAAAA-TGAAATGAAATGAAAT-AAAT-TAA-AAATTAAAAATTGAT
* * *
50029731 AATGAAATGAACAA---AAAATTGAAATGAAAT-AAATAAAAATT-GAAATGAAATGAGTTGAT
1 AATGAAATGAA-AATTTAAAA-TGAAATGAAATGAAAT--AAATTAAAAATTAAA--AATTGAT
*
50029790 AATGAAATGAAAATTTCAAATGAAATGAAATGAAATAAATTAAAAATTAAAAATTGA-
1 AATGAAATGAAAATTTAAAATGAAATGAAATGAAATAAATTAAAAATTAAAAATTGAT
50029847 AATGAAATGAAATAATTTAAAAGTTGAAATGAAATGAAATAAATT
1 AATGAAATG-AA-AATTTAAAA--TGAAATGAAATGAAATAAATT
50029892 TATTATTTAA
Statistics
Matches: 134, Mismatches: 11, Indels: 30
0.77 0.06 0.17
Matches are distributed among these distances:
55 7 0.05
57 14 0.10
58 31 0.23
59 33 0.25
60 19 0.14
61 30 0.22
ACGTcount: A:0.60, C:0.01, G:0.12, T:0.26
Consensus pattern (58 bp):
AATGAAATGAAAATTTAAAATGAAATGAAATGAAATAAATTAAAAATTAAAAATTGAT
Found at i:50030510 original size:20 final size:20
Alignment explanation
Indices: 50030485--50030524 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
50030475 CAATATGGTC
*
50030485 AAATATTCACTAATTTATAA
1 AAATATTCACTAATTGATAA
50030505 AAATATTCACTAATTGATAA
1 AAATATTCACTAATTGATAA
50030525 TATATTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATTCACTAATTGATAA
Found at i:50034847 original size:6 final size:6
Alignment explanation
Indices: 50034829--50034876 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
50034819 GAAATCTAAG
* *
50034829 AAAATA ACAATA AACATA AAAATA AAAATA AAAATA TAAAATA TAAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAATA -AAAA
50034877 CAAATGGACT
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:50036488 original size:3 final size:3
Alignment explanation
Indices: 50036480--50036533 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
50036470 CAGTAAAACC
50036480 AAT AAT AAT AA- AAT AAT AAT AAT AAAT AA- AA- AAT AATT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA-T AAT AAT
50036524 AAT AAT AAT A
1 AAT AAT AAT A
50036534 CTAGAGCTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.13
3 35 0.74
4 6 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:50036499 original size:14 final size:14
Alignment explanation
Indices: 50036480--50036531 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
50036470 CAGTAAAACC
50036480 AATAATAATAAAAT
1 AATAATAATAAAAT
50036494 AATAATAAT-AAAT
1 AATAATAATAAAAT
50036507 AA-AA-AATAATTAAT
1 AATAATAATAA--AAT
50036521 AATAATAATAA
1 AATAATAATAA
50036532 TACTAGAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.09
12 3 0.09
13 6 0.18
14 14 0.42
15 2 0.06
16 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AATAATAATAAAAT
Found at i:50040846 original size:14 final size:14
Alignment explanation
Indices: 50040815--50040874 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
50040805 TTTTCAACAG
* * *
50040815 TAAACCCTAAATCT
1 TAAATCCTAAACCC
* *
50040829 TAAATCCCAAACCA
1 TAAATCCTAAACCC
*
50040843 TAAA-CCTACACCC
1 TAAATCCTAAACCC
50040856 TAAATCCTAAACCC
1 TAAATCCTAAACCC
50040870 TAAAT
1 TAAAT
50040875 ATATATATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
13 10 0.27
14 27 0.73
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAATCCTAAACCC
Found at i:50040857 original size:7 final size:7
Alignment explanation
Indices: 50040815--50040873 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
50040805 TTTTCAACAG
50040815 TAAACCC
1 TAAACCC
* *
50040822 TAAATCT
1 TAAACCC
50040829 TAAATCCC
1 TAAA-CCC
*
50040837 -AAACCA
1 TAAACCC
50040843 TAAA-CC
1 TAAACCC
*
50040849 TACACCC
1 TAAACCC
*
50040856 TAAATCC
1 TAAACCC
50040863 TAAACCC
1 TAAACCC
50040870 TAAA
1 TAAA
50040874 TATATATATA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
6 6 0.15
7 32 0.82
8 1 0.03
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:50041179 original size:50 final size:50
Alignment explanation
Indices: 50041085--50041179 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
50041075 CCCAAAATAA
* * * * *
50041085 TAAATATTATATCATAAACCCTAAACCCCTAAACCATGAGCATTAAACCT
1 TAAATATTAAATCATAAACCCTAAACCCCAAAACAATAAACATTAAACCT
* *
50041135 TAAATCTTAAATCATAAACCCTAAACCCCAAAATAATAAACATTA
1 TAAATATTAAATCATAAACCCTAAACCCCAAAACAATAAACATTA
50041180 TATCATAACC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.25
Consensus pattern (50 bp):
TAAATATTAAATCATAAACCCTAAACCCCAAAACAATAAACATTAAACCT
Found at i:50041668 original size:7 final size:7
Alignment explanation
Indices: 50041634--50041745 Score: 95
Period size: 7 Copynumber: 16.1 Consensus size: 7
50041624 CCATATTTAC
50041634 CCCTAAA
1 CCCTAAA
50041641 CCC--AA
1 CCCTAAA
50041646 CCTCTAAA
1 CC-CTAAA
*
50041654 CCCCAAA
1 CCCTAAA
*
50041661 CCTTAAA
1 CCCTAAA
50041668 CCCTAAA
1 CCCTAAA
50041675 CCCTAAA
1 CCCTAAA
*
50041682 CCCCAAA
1 CCCTAAA
*
50041689 CCATAAA
1 CCCTAAA
* *
50041696 CTCTAAG
1 CCCTAAA
50041703 CCCTAAA
1 CCCTAAA
*
50041710 CTCTAAA
1 CCCTAAA
*
50041717 TCCTAAA
1 CCCTAAA
*
50041724 CCTTAAA
1 CCCTAAA
*
50041731 CCAT-AA
1 CCCTAAA
50041737 CCCATAAA
1 CCC-TAAA
50041745 C
1 C
50041746 TAAATTTAAA
Statistics
Matches: 81, Mismatches: 19, Indels: 9
0.74 0.17 0.08
Matches are distributed among these distances:
5 4 0.05
6 5 0.06
7 65 0.80
8 7 0.09
ACGTcount: A:0.43, C:0.39, G:0.01, T:0.17
Consensus pattern (7 bp):
CCCTAAA
Found at i:50041808 original size:40 final size:40
Alignment explanation
Indices: 50041761--50041849 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
50041751 TTAAAAATGT
* * *
50041761 CACTAATGCTCGATCTATGGCGGCATTGTTT-AAAAAGCGC
1 CACTAATGCTCGACCTATAGCAGCATT-TTTCAAAAAGCGC
* *
50041801 CACTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGC
1 CACTAATGCTCGACCTATAGCAGCATTTTTCAAAAAGCGC
*
50041841 CGCTAATGC
1 CACTAATGC
50041850 CACTAAAGCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (40 bp):
CACTAATGCTCGACCTATAGCAGCATTTTTCAAAAAGCGC
Found at i:50041996 original size:115 final size:114
Alignment explanation
Indices: 50041782--50042079 Score: 418
Period size: 115 Copynumber: 2.6 Consensus size: 114
50041772 GATCTATGGC
* * *
50041782 GGCATTGTTTAAAAAGCGCCACTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAA
1 GGCATTTTTTAAAAAGCACCGCTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAA
50041847 TGCCACTAAAGCTCACATAAAACGACGGCATTGTGCTTAATTTTTTTGT-
66 TGCCACTAAAGCTCACATAAAACGACGGCATTGTGCTTAATTTTTTT-TA
* * * *
50041896 GGCATTTTTTAAAAAAGCATCGCTAATAGTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTA
1 GGCATTTTTT-AAAAAGCACCGCTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGCCGCTA
*
50041961 ATGCCACTAAAGCTCACATAAAACGACGGCGTTGTGCTTAATTTTTTTTA
65 ATGCCACTAAAGCTCACATAAAACGACGGCATTGTGCTTAATTTTTTTTA
** * * * * * *
50042011 CGGTGTTTTTTAAAAAGCGCCTCTAATGGTCAACCTATAGTAGCATTTTTCAAAAAGCGCCACTA
1 -GGCATTTTTTAAAAAGCACCGCTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGCCGCTA
50042076 ATGC
65 ATGC
50042080 TCGATCTATA
Statistics
Matches: 161, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
114 10 0.06
115 143 0.89
116 8 0.05
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (114 bp):
GGCATTTTTTAAAAAGCACCGCTAATGGTCGACCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAA
TGCCACTAAAGCTCACATAAAACGACGGCATTGTGCTTAATTTTTTTTA
Found at i:50042100 original size:40 final size:40
Alignment explanation
Indices: 50042015--50042100 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
50042005 TTTTTACGGT
* * * *
50042015 GTTTTTTAAAAAGCGCCTCTAATGGTCAACCTATAGTAGC
1 GTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCAGC
* * * *
50042055 ATTTTTCAAAAAGCGCCACTAATGCTCGATCTATAGCGGC
1 GTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCAGC
50042095 GTTTTT
1 GTTTTT
50042101 AGTCCTAGCG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (40 bp):
GTTTTTCAAAAAGCGCCACTAATGCTCAACCTATAGCAGC
Found at i:50043520 original size:19 final size:19
Alignment explanation
Indices: 50043489--50043538 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
50043479 TCTAAAGAAA
50043489 TTGAATGGAGATATTCAATC
1 TTGAAT-GAGATATTCAATC
50043509 TTGAATGAGATATTCAATC
1 TTGAATGAGATATTCAATC
*
50043528 TTGAAGGAGAT
1 TTGAATGAGAT
50043539 CCGCTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (19 bp):
TTGAATGAGATATTCAATC
Found at i:50044667 original size:23 final size:21
Alignment explanation
Indices: 50044637--50044682 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
50044627 AATTATTTAT
50044637 AATTTATATATGAAAATATAA
1 AATTTATATATGAAAATATAA
50044658 AATTTATATATGAAAATATAA
1 AATTTATATATGAAAATATAA
50044679 AATT
1 AATT
50044683 CGACCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (21 bp):
AATTTATATATGAAAATATAA
Found at i:50049675 original size:18 final size:19
Alignment explanation
Indices: 50049642--50049679 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
50049632 AGACTCCAGG
*
50049642 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
50049661 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
50049679 T
1 T
50049680 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:50056159 original size:40 final size:34
Alignment explanation
Indices: 50056084--50056153 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
50056074 AGTAACAGTC
50056084 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
*
50056118 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
50056152 CA
1 CA
50056154 ATAACAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAATAA
Found at i:50063816 original size:34 final size:34
Alignment explanation
Indices: 50063778--50063847 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
50063768 AGTAACAATC
* * * *
50063778 CAGTATCAGTGTGGATCTTAGTCCATTACAATAA
1 CAGTATCAATATGGACCTTAGCCCATTACAATAA
* *
50063812 CAGTATCAATATGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAATATGGACCTTAGCCCATTACAATAA
50063846 CA
1 CA
50063848 ATAACAGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (34 bp):
CAGTATCAATATGGACCTTAGCCCATTACAATAA
Found at i:50064005 original size:21 final size:21
Alignment explanation
Indices: 50063981--50064027 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
50063971 CGGCATTATT
50063981 CAGTAATTGCAGCAAAGCTGC
1 CAGTAATTGCAGCAAAGCTGC
* *
50064002 CAGTAATTGTAGCAGAGCTGC
1 CAGTAATTGCAGCAAAGCTGC
50064023 CAGTA
1 CAGTA
50064028 CAGTACACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (21 bp):
CAGTAATTGCAGCAAAGCTGC
Found at i:50067608 original size:43 final size:43
Alignment explanation
Indices: 50067561--50067663 Score: 107
Period size: 43 Copynumber: 2.4 Consensus size: 43
50067551 TAGAACATGA
50067561 CCTTTAGCGGCGCTTTTACAACAAACACCGCTAAAAAATATGG
1 CCTTTAGCGGCGCTTTTACAACAAACACCGCTAAAAAATATGG
* * * * * ** * *
50067604 CCTTTGGCGACACTTTTCCCACAAACGTCGTTAAAGAATATGG
1 CCTTTAGCGGCGCTTTTACAACAAACACCGCTAAAAAATATGG
* *
50067647 CCTTTAACAGCGCTTTT
1 CCTTTAGCGGCGCTTTT
50067664 CCCATAAACG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
CCTTTAGCGGCGCTTTTACAACAAACACCGCTAAAAAATATGG
Found at i:50067991 original size:19 final size:19
Alignment explanation
Indices: 50067946--50067994 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
50067936 TAAATATTAA
* **
50067946 AATAAAAATAAAAATTTAG
1 AATAAAAATTAAAATAAAG
* *
50067965 AATCAAAATTAAAATAAAT
1 AATAAAAATTAAAATAAAG
50067984 AATAAAAATTA
1 AATAAAAATTA
50067995 TCTAATACTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
AATAAAAATTAAAATAAAG
Found at i:50070820 original size:82 final size:80
Alignment explanation
Indices: 50070703--50070855 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 80
50070693 AATGGGGAAA
* *
50070703 AAAAAGAGAAGAAATTTCAGGCAAAGTTTTAGGATTTCTTTGGGGAG-GGGGAGGGAACCGATTT
1 AAAAAGAGAAGAAATTTCAGCCAAAGTTTTAGGATTTC---GGGGAGAAGGGA-GGAACCGATTT
50070767 TGGGAAAAAGAAAGGAGGG
62 TGGGAAAAAGAAAGGAGGG
* * *
50070786 AAAAA-AGAAGATATTTCATGCCAAA-TTTTGGGATTTCGGGGCGAAGGGAGGAACCGATTTTGG
1 AAAAAGAGAAGAAATTTCA-GCCAAAGTTTTAGGATTTCGGGGAGAAGGGAGGAACCGATTTTGG
50070849 GAAAAAG
65 GAAAAAG
50070856 TCTTAAGGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
79 26 0.41
80 4 0.06
82 23 0.37
83 10 0.16
ACGTcount: A:0.37, C:0.08, G:0.33, T:0.22
Consensus pattern (80 bp):
AAAAAGAGAAGAAATTTCAGCCAAAGTTTTAGGATTTCGGGGAGAAGGGAGGAACCGATTTTGGG
AAAAAGAAAGGAGGG
Found at i:50071046 original size:17 final size:18
Alignment explanation
Indices: 50071013--50071046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50071003 TATTTCTTAA
50071013 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
50071031 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
50071047 AAAATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:50071475 original size:15 final size:15
Alignment explanation
Indices: 50071455--50071490 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
50071445 GACCCTAACT
50071455 ATAAAACAAAAAACC
1 ATAAAACAAAAAACC
*
50071470 ATAAAACCAAAAACC
1 ATAAAACAAAAAACC
50071485 A-AAAAC
1 ATAAAAC
50071491 TCTAAACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.72, C:0.22, G:0.00, T:0.06
Consensus pattern (15 bp):
ATAAAACAAAAAACC
Found at i:50071482 original size:7 final size:7
Alignment explanation
Indices: 50071457--50071490 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
50071447 CCCTAACTAT
*
50071457 AAAACAA
1 AAAACCA
50071464 AAAACCA
1 AAAACCA
50071471 TAAAACCA
1 -AAAACCA
50071479 AAAACCA
1 AAAACCA
50071486 AAAAC
1 AAAAC
50071491 TCTAAACCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.74, C:0.24, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAACCA
Found at i:50071488 original size:22 final size:22
Alignment explanation
Indices: 50071457--50071503 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
50071447 CCCTAACTAT
50071457 AAAACAAAAAAC-CATAAAACCA
1 AAAACAAAAAACTC-TAAAACCA
* *
50071479 AAAACCAAAAACTCTAAACCCA
1 AAAACAAAAAACTCTAAAACCA
50071501 AAA
1 AAA
50071504 TAATAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.68, C:0.26, G:0.00, T:0.06
Consensus pattern (22 bp):
AAAACAAAAAACTCTAAAACCA
Found at i:50072118 original size:14 final size:15
Alignment explanation
Indices: 50072087--50072127 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
50072077 ATATTTACCC
50072087 CTAAA-CCC-AACCT
1 CTAAACCCCAAACCT
50072100 CTAAACCCCAAACCT
1 CTAAACCCCAAACCT
*
50072115 -TAAACCCTAAACC
1 CTAAACCCCAAACC
50072128 CCAAACCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 15 0.60
15 5 0.20
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (15 bp):
CTAAACCCCAAACCT
Found at i:50072124 original size:21 final size:21
Alignment explanation
Indices: 50072095--50072189 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 21
50072085 CCCTAAACCC
*
50072095 AACCTCTAAACCCCAAACCTTA
1 AACC-CTAAACCCCAAACCATA
50072117 AACCCTAAACCCCAAACCATA
1 AACCCTAAACCCCAAACCATA
* * **
50072138 AACTCTAAGCCATAAACTC-TA
1 AACCCTAAACCCCAAAC-CATA
* **
50072159 AATCCTAAACCTTAAACCAT-
1 AACCCTAAACCCCAAACCATA
50072179 AACCCATAAAC
1 AACCC-TAAAC
50072190 TAAATTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 5 0.08
21 50 0.83
22 5 0.08
ACGTcount: A:0.45, C:0.36, G:0.01, T:0.18
Consensus pattern (21 bp):
AACCCTAAACCCCAAACCATA
Found at i:50072133 original size:14 final size:14
Alignment explanation
Indices: 50072085--50072134 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
50072075 CCATATTTAC
50072085 CCCTAAA-CCC-AA
1 CCCTAAACCCCAAA
50072097 CCTCTAAACCCCAAA
1 CC-CTAAACCCCAAA
* *
50072112 CCTTAAACCCTAAA
1 CCCTAAACCCCAAA
*
50072126 CCCCAAACC
1 CCCTAAACC
50072135 ATAAACTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 20 0.65
15 4 0.13
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (14 bp):
CCCTAAACCCCAAA
Found at i:50072168 original size:14 final size:14
Alignment explanation
Indices: 50072133--50072159 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50072123 AAACCCCAAA
50072133 CCATAAACTCTAAG
1 CCATAAACTCTAAG
50072147 CCATAAACTCTAA
1 CCATAAACTCTAA
50072160 ATCCTAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.30, G:0.04, T:0.22
Consensus pattern (14 bp):
CCATAAACTCTAAG
Found at i:50072186 original size:35 final size:35
Alignment explanation
Indices: 50072115--50072190 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
50072105 CCCCAAACCT
* *
50072115 TAAACCCTAAACCCCAAACCATAAACTCTAAGCCA
1 TAAACTCTAAACCCCAAACCATAAACTCTAACCCA
* * *
50072150 TAAACTCTAAATCCTAAACCTTAAAC-CATAACCCA
1 TAAACTCTAAACCCCAAACCATAAACTC-TAACCCA
50072185 TAAACT
1 TAAACT
50072191 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.03
35 34 0.97
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (35 bp):
TAAACTCTAAACCCCAAACCATAAACTCTAACCCA
Found at i:50072266 original size:40 final size:40
Alignment explanation
Indices: 50072214--50072292 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
50072204 CCGGTAATAT
*
50072214 TCGATCTATAGCGGCGTTGTTT-AAAAAGCACCGCTAATGG
1 TCGACCTATAGCGGCGTT-TTTCAAAAAGCACCGCTAATGG
*
50072254 TCGACCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATG
1 TCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATG
50072293 CCACTAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 3 0.08
40 33 0.92
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (40 bp):
TCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGG
Found at i:50072438 original size:115 final size:115
Alignment explanation
Indices: 50072226--50072523 Score: 445
Period size: 115 Copynumber: 2.6 Consensus size: 115
50072216 GATCTATAGC
* *
50072226 GGCGTTGTTTAAAAAGCACCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAA
1 GGCGTTTTTTAAAAAGCACCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAA
* *
50072291 TGCCACTAAAGTTCACATAAAACAACGGCATTGTGCTT-AATTTTTTTGT
66 TGCCACTAAAGCTCACATAAAACAACGGCATTGTGCTTAAATTTTTTTAT
* * *
50072340 GGCGTTTTTTAAAAAAGCACCACTAATAGTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGTTA
1 GGCGTTTTTT-AAAAAGCACCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTA
*
50072405 ATGCCACTAAAGCTCACATAAAACGACGGCATTGTGCTTAAATTTTTTTAT
65 ATGCCACTAAAGCTCACATAAAACAACGGCATTGTGCTTAAATTTTTTTAT
* * * * ** *
50072456 GGCATTTTTTAAAAAGCGCTGCTAATGGTCAACCTATAGTAGCGTTTTTCAAAAAGCACCACTAA
1 GGCGTTTTTTAAAAAGCACCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAA
50072521 TGC
66 TGC
50072524 TCGATCTATA
Statistics
Matches: 164, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
114 9 0.05
115 136 0.83
116 19 0.12
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (115 bp):
GGCGTTTTTTAAAAAGCACCGCTAATGGTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCTAA
TGCCACTAAAGCTCACATAAAACAACGGCATTGTGCTTAAATTTTTTTAT
Found at i:50073992 original size:23 final size:19
Alignment explanation
Indices: 50073933--50073983 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
50073923 TCTAAAGAAA
50073933 TTGAATGGAGATCTTCAAAC
1 TTGAA-GGAGATCTTCAAAC
*
50073953 TTGAAGGAGATCTTCAATC
1 TTGAAGGAGATCTTCAAAC
50073972 TTGAAGGAGATC
1 TTGAAGGAGATC
50073984 CGCTTTCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (19 bp):
TTGAAGGAGATCTTCAAAC
Found at i:50075115 original size:21 final size:21
Alignment explanation
Indices: 50075089--50075134 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
50075079 AATTATTTAT
**
50075089 AATTTATATATGAAAATATAA
1 AATTTATATACAAAAATATAA
50075110 AATTTATATACAAAAATATAA
1 AATTTATATACAAAAATATAA
50075131 AATT
1 AATT
50075135 CGACCAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTTATATACAAAAATATAA
Found at i:50082236 original size:21 final size:21
Alignment explanation
Indices: 50082210--50082256 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
50082200 CGACATTATT
* * *
50082210 CAGTAATTGTAGTATAGCTGC
1 CAGTAATTGCAGCAAAGCTGC
50082231 CAGTAATTGCAGCAAAGCTGC
1 CAGTAATTGCAGCAAAGCTGC
50082252 CAGTA
1 CAGTA
50082257 CAGTACACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (21 bp):
CAGTAATTGCAGCAAAGCTGC
Found at i:50082556 original size:17 final size:19
Alignment explanation
Indices: 50082522--50082558 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
50082512 AAAGTTCACA
50082522 ACACAGCCCATGTGGGCCC
1 ACACAGCCCATGTGGGCCC
*
50082541 ACAC-GCCCGTGT-GGCCC
1 ACACAGCCCATGTGGGCCC
50082558 A
1 A
50082559 TTAAGCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.19, C:0.43, G:0.27, T:0.11
Consensus pattern (19 bp):
ACACAGCCCATGTGGGCCC
Found at i:50088901 original size:91 final size:91
Alignment explanation
Indices: 50088741--50088933 Score: 368
Period size: 91 Copynumber: 2.1 Consensus size: 91
50088731 AATATGGGGT
*
50088741 ATTAGCCAAGCCCTTAATAGTCCTATTAAAGGAGTTGGTTTGGAATTAGTCTAATAATGTACTAG
1 ATTACCCAAGCCCTTAATAGTCCTATTAAAGGAGTTGGTTTGGAATTAGTCTAATAATGTACTAG
50088806 AAGCTTTTGAACAGCTCAAAACAACA
66 AAGCTTTTGAACAGCTCAAAACAACA
*
50088832 ATTACCCAAGCCCTTAATAGTCCTATTAAAGGAGTTGGTTTGGAATTAGTCTAATAGTGTACTAG
1 ATTACCCAAGCCCTTAATAGTCCTATTAAAGGAGTTGGTTTGGAATTAGTCTAATAATGTACTAG
50088897 AAGCTTTTGAACAGCTCAAAACAACA
66 AAGCTTTTGAACAGCTCAAAACAACA
50088923 ATTACCCAAGC
1 ATTACCCAAGC
50088934 ACCATAACTA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 100 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (91 bp):
ATTACCCAAGCCCTTAATAGTCCTATTAAAGGAGTTGGTTTGGAATTAGTCTAATAATGTACTAG
AAGCTTTTGAACAGCTCAAAACAACA
Found at i:50097441 original size:44 final size:42
Alignment explanation
Indices: 50097375--50097462 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 42
50097365 CTAAACTCAG
*
50097375 AAAAAATATCTTATTTATTTCAAAATAAAAATAAAATAATTA
1 AAAAAATATCTTATTTACTTCAAAATAAAAATAAAATAATTA
*
50097417 AAAAATATAATCTTATTTACTTCAAAATAAAAATATAATAATTA
1 AAAAA-AT-ATCTTATTTACTTCAAAATAAAAATAAAATAATTA
50097461 AA
1 AA
50097463 TTAAGTTTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 5 0.12
43 2 0.05
44 35 0.83
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (42 bp):
AAAAAATATCTTATTTACTTCAAAATAAAAATAAAATAATTA
Found at i:50113419 original size:22 final size:22
Alignment explanation
Indices: 50113394--50113441 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50113384 TGGTAGCAGT
*
50113394 TTTGACAAATACCATTCTGTTA
1 TTTGACAAATACCATTCTATTA
***
50113416 TTTGGTTAATACCATTCTATTA
1 TTTGACAAATACCATTCTATTA
50113438 TTTG
1 TTTG
50113442 GTTTATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (22 bp):
TTTGACAAATACCATTCTATTA
Found at i:50113442 original size:22 final size:22
Alignment explanation
Indices: 50113401--50113444 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50113391 AGTTTTGACA
*
50113401 AATACCATTCTGTTATTTGGTT
1 AATACCATTCTATTATTTGGTT
50113423 AATACCATTCTATTATTTGGTT
1 AATACCATTCTATTATTTGGTT
50113445 TATTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (22 bp):
AATACCATTCTATTATTTGGTT
Found at i:50116138 original size:23 final size:23
Alignment explanation
Indices: 50116111--50116156 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
50116101 TAGACTCCAT
50116111 CCAGCTTCCTAAAGTCAAAATCC
1 CCAGCTTCCTAAAGTCAAAATCC
*
50116134 CCAGCTTTCTAAAGTCAAAATCC
1 CCAGCTTCCTAAAGTCAAAATCC
50116157 TACTCTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.09, T:0.24
Consensus pattern (23 bp):
CCAGCTTCCTAAAGTCAAAATCC
Found at i:50116200 original size:12 final size:12
Alignment explanation
Indices: 50116185--50116209 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50116175 CTATCCTAAT
50116185 TAAAATCCAAAA
1 TAAAATCCAAAA
50116197 TAAAATCCAAAA
1 TAAAATCCAAAA
50116209 T
1 T
50116210 TCAAATGTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAATCCAAAA
Found at i:50117380 original size:16 final size:17
Alignment explanation
Indices: 50117361--50117393 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
50117351 GCAAAAAGAT
*
50117361 TACAAGTTAAC-CATAA
1 TACAAGTGAACACATAA
50117377 TACAAGTGAACACATAA
1 TACAAGTGAACACATAA
50117394 CATTACCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (17 bp):
TACAAGTGAACACATAA
Found at i:50120611 original size:16 final size:16
Alignment explanation
Indices: 50120590--50120621 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50120580 TCAATTAATC
*
50120590 TAATTAACCTAAAAAT
1 TAATTAAACTAAAAAT
50120606 TAATTAAACTAAAAAT
1 TAATTAAACTAAAAAT
50120622 CAACCAATTA
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:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATTAAACTAAAAAT
Found at i:50130415 original size:193 final size:191
Alignment explanation
Indices: 50130041--50130419 Score: 548
Period size: 193 Copynumber: 2.0 Consensus size: 191
50130031 CAGTATCCCT
* * *
50130041 TACTAGAATACTCAAAAAAGCTTATTTCCATATAGATAACCAGTTCCCAATGGCCGAAAAATCCC
1 TACTAGAATACTCAAAAAAGCTTATTTCCATACAGATAACCAGTGCCCAATGGCCAAAAAATCCC
* *
50130106 AAATTTTCCTCCCTCTTTATAATTTGATCCACTCTTATAAGCAAAGTCCGAATCCACCAACCTAA
66 AAAATTTCCTCCCTCTTTATAATTTCATCCACTCTTATAAGCAAAGTCCGAATCCACCAACCTAA
** * *
50130171 GTTGGTTAATCTTATTAACATCTGCATCCTAATCCATTAATCTTCCCATATTAGCATCCTC
131 AATGGTTAATCTTATTAACATCTACATCATAATCCATTAATCTTCCCATATTAGCATCCTC
* *
50130232 TACTAGAATACT-AATAAAATGCTTATTTCCATCACAGATAATCAGTGCCCAATGG-TAAACAAA
1 TACTAGAATACTCAA-AAAA-GCTTATTTCCAT-ACAGATAACCAGTGCCCAATGGCCAAA-AAA
* * * * *
50130295 TCCCAAAATTTCCTCTCTGTTTATAATTTCATCCACTCTTATATGCACAGTCGGAATCCACCAAC
62 TCCCAAAATTTCCTCCCTCTTTATAATTTCATCCACTCTTATAAGCAAAGTCCGAATCCACCAAC
50130360 CTAAAATGGTTAATCTTATTAACATAC-ACATCATAATCCATTAATCTTCCCATATTAGCA
127 CTAAAATGGTTAATCTTATTAACAT-CTACATCATAATCCATTAATCTTCCCATATTAGCA
50130420 CACTCTTCCC
Statistics
Matches: 167, Mismatches: 16, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
190 2 0.01
191 16 0.10
192 14 0.08
193 134 0.80
194 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (191 bp):
TACTAGAATACTCAAAAAAGCTTATTTCCATACAGATAACCAGTGCCCAATGGCCAAAAAATCCC
AAAATTTCCTCCCTCTTTATAATTTCATCCACTCTTATAAGCAAAGTCCGAATCCACCAACCTAA
AATGGTTAATCTTATTAACATCTACATCATAATCCATTAATCTTCCCATATTAGCATCCTC
Found at i:50133461 original size:36 final size:37
Alignment explanation
Indices: 50133398--50133469 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 37
50133388 GTTGAAAACC
50133398 CTAGATATGGAGACTCCCCCAAATTTTGGCACCCTTG
1 CTAGATATGGAGACTCCCCCAAATTTTGGCACCCTTG
*
50133435 CTAGCTATGGAGACT-CCCCAAATTTTGGCACCCTT
1 CTAGATATGGAGACTCCCCCAAATTTTGGCACCCTT
50133470 AGAGAAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 20 0.59
37 14 0.41
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (37 bp):
CTAGATATGGAGACTCCCCCAAATTTTGGCACCCTTG
Found at i:50136006 original size:43 final size:43
Alignment explanation
Indices: 50135953--50136039 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
50135943 TGAGTTATGT
*
50135953 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATAGATGCG
1 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATAGATGCG
* * *
50135996 AGCATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATGGATGCG
1 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATAGATGCG
50136039 A
1 A
50136040 TTCATGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGATAGATGCG
Found at i:50146778 original size:13 final size:13
Alignment explanation
Indices: 50146760--50146784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50146750 TAATGGTATA
50146760 TTGAATCCATGAC
1 TTGAATCCATGAC
50146773 TTGAATCCATGA
1 TTGAATCCATGA
50146785 AAATTTAGTA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:50147365 original size:27 final size:26
Alignment explanation
Indices: 50147334--50147511 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
50147324 TAAATTGTAC
50147334 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
50147361 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
50147387 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
50147415 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
50147443 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
50147470 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
50147497 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50147512 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:50147450 original size:82 final size:81
Alignment explanation
Indices: 50147335--50147490 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
50147325 AAATTGTACA
* *
50147335 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
50147399 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
50147416 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
50147481 TGCGAGTTGA
65 TGCGAATTGA
50147491 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:50147502 original size:82 final size:81
Alignment explanation
Indices: 50147331--50147511 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
50147321 GATTAAATTG
* *
50147331 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50147396 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
50147412 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
50147476 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
50147494 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
50147512 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50147522 original size:27 final size:27
Alignment explanation
Indices: 50147416--50147522 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
50147406 TGACCATGCG
* * * *
50147416 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
50147444 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
50147471 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
50147498 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
50147523 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:50155448 original size:27 final size:27
Alignment explanation
Indices: 50155417--50155594 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50155407 TAAATTGTAC
50155417 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
50155444 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
50155470 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
50155498 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
50155526 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
50155553 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
50155580 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
50155595 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:50155531 original size:82 final size:81
Alignment explanation
Indices: 50155418--50155573 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50155408 AAATTGTACA
* *
50155418 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
50155482 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
50155499 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
50155564 TGCGAGTTGA
65 TGCGAATTGA
50155574 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:50155585 original size:82 final size:81
Alignment explanation
Indices: 50155414--50155594 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
50155404 GATTAAATTG
* *
50155414 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
50155479 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
50155495 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
50155559 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
50155577 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
50155595 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:50157544 original size:17 final size:17
Alignment explanation
Indices: 50157519--50157557 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50157509 AAGAGTTTGT
*
50157519 CAAACCCTAGAGTTCAC
1 CAAATCCTAGAGTTCAC
*
50157536 TAAATCCTAGAGTTCAC
1 CAAATCCTAGAGTTCAC
50157553 CAAAT
1 CAAAT
50157558 GGCGAATCCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.28, G:0.10, T:0.23
Consensus pattern (17 bp):
CAAATCCTAGAGTTCAC
Found at i:50165752 original size:20 final size:20
Alignment explanation
Indices: 50165679--50165773 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
50165669 CAATTAAGCC
*
50165679 TAGAAATTTTGGTATCACAT
1 TAGAAATATTGGTATCACAT
** * *
50165699 TAGCTATATTGGTGTCA-GT
1 TAGAAATATTGGTATCACAT
* * **
50165718 TAGAAATTTTAGTATCATGTT
1 TAGAAATATTGGTATCA-CAT
50165739 TA-AAATATTGGTATCACAT
1 TAGAAATATTGGTATCACAT
50165758 TAGAAATATTGGTATC
1 TAGAAATATTGGTATC
50165774 TCGTTAAAAA
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
19 16 0.28
20 38 0.67
21 3 0.05
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (20 bp):
TAGAAATATTGGTATCACAT
Found at i:50165803 original size:59 final size:58
Alignment explanation
Indices: 50165686--50165807 Score: 138
Period size: 59 Copynumber: 2.1 Consensus size: 58
50165676 GCCTAGAAAT
** * * * * *
50165686 TTTGGTATCACATTAGCTATATTGGTGTCAGTTAGAAATTTTAGTATCATGTTTAAAA
1 TTTGGTATCACATTAGAAATATTGGTATCAGTTAAAAAATTTAGCATCATGTTAAAAA
* *
50165744 TATTGGTATCACATTAGAAATATTGGTATCTCGTTAAAAAATTTGGCATCA-GTTAAAAA
1 T-TTGGTATCACATTAGAAATATTGGTATC-AGTTAAAAAATTTAGCATCATGTTAAAAA
50165803 TTTGG
1 TTTGG
50165808 CATTGATTAG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 5 0.09
59 33 0.62
60 15 0.28
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (58 bp):
TTTGGTATCACATTAGAAATATTGGTATCAGTTAAAAAATTTAGCATCATGTTAAAAA
Found at i:50166531 original size:29 final size:30
Alignment explanation
Indices: 50166457--50166538 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 30
50166447 TTTTAAATTT
* *
50166457 TGAAAAGTACAAAGACTAAAATTTACCAATT
1 TGAAAAGTAC-AAGACTAAAATTAACCAATA
* *
50166488 TGAAAATTA-AAGACTAAAATTAATCAA-A
1 TGAAAAGTACAAGACTAAAATTAACCAATA
50166516 T-AAAAGTACAAGGACTACAAATT
1 TGAAAAGTACAA-GACTA-AAATT
50166539 TTGCTAAGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 6 0.14
28 3 0.07
29 21 0.49
30 5 0.12
31 8 0.19
ACGTcount: A:0.55, C:0.11, G:0.10, T:0.24
Consensus pattern (30 bp):
TGAAAAGTACAAGACTAAAATTAACCAATA
Found at i:50169602 original size:23 final size:23
Alignment explanation
Indices: 50169574--50169622 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
50169564 TCCTGAAGTG
50169574 AATGTTGCATATAATTGTTTGCA
1 AATGTTGCATATAATTGTTTGCA
*
50169597 AATGTTGTATATAATTGTTTGCA
1 AATGTTGCATATAATTGTTTGCA
50169620 AAT
1 AAT
50169623 TTTATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (23 bp):
AATGTTGCATATAATTGTTTGCA
Found at i:50179456 original size:20 final size:20
Alignment explanation
Indices: 50179433--50179483 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
50179423 GAACCCAATA
50179433 TTTTATTTATTAAATTTTAT
1 TTTTATTTATTAAATTTTAT
50179453 TTTTATTTATTAAATTTTAT
1 TTTTATTTATTAAATTTTAT
50179473 TTTTATTTATT
1 TTTTATTTATT
50179484 TATTCTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTATTTATTAAATTTTAT
Found at i:50183126 original size:23 final size:23
Alignment explanation
Indices: 50183098--50183153 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
50183088 CTATAATATC
50183098 CAAATAATATTAAAAATGACAGT
1 CAAATAATATTAAAAATGACAGT
50183121 CAAATAATATTAAAAATGACAGT
1 CAAATAATATTAAAAATGACAGT
* *
50183144 GAAACAATAT
1 CAAATAATAT
50183154 AATAAACAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (23 bp):
CAAATAATATTAAAAATGACAGT
Found at i:50183222 original size:24 final size:25
Alignment explanation
Indices: 50183190--50183245 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
50183180 AAATAGTTGC
* *
50183190 AAAACAACAATAAAA-AGCATAAAA
1 AAAACAACAACAAAATAGCACAAAA
*
50183214 AAAACAACACCAAAATAGCACAAAA
1 AAAACAACAACAAAATAGCACAAAA
50183239 AACAACA
1 AA-AACA
50183246 TGCAAAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 13 0.48
25 10 0.37
26 4 0.15
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.05
Consensus pattern (25 bp):
AAAACAACAACAAAATAGCACAAAA
Found at i:50183662 original size:21 final size:20
Alignment explanation
Indices: 50183615--50183662 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
50183605 TGGCACGTTA
50183615 TTTTTTGTTTTGTTTCTTCT
1 TTTTTTGTTTTGTTTCTTCT
50183635 TGGTTTTTGTTCTTGTGTTCTTCT
1 T--TTTTTGTT-TTGT-TTCTTCT
50183659 TTTT
1 TTTT
50183663 GCTTTTTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
20 1 0.04
22 11 0.46
23 4 0.17
24 8 0.33
ACGTcount: A:0.00, C:0.10, G:0.15, T:0.75
Consensus pattern (20 bp):
TTTTTTGTTTTGTTTCTTCT
Found at i:50188155 original size:151 final size:151
Alignment explanation
Indices: 50187881--50188185 Score: 592
Period size: 151 Copynumber: 2.0 Consensus size: 151
50187871 ATAAAAGGTT
* *
50187881 AGTAATAAAGTAATGAAAAGGGAGGGGTGATGAAAACAAAGTTGTCTCATCCATGTTTCCCCCTC
1 AGTAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCATGTTTCCCCCCC
50187946 CATTGCCGTGACTTGAGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCTAAATGAAAAGAG
66 CATTGCCGTGACTTGAGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCTAAATGAAAAGAG
50188011 GAAGAAGGGAGTGAAGCATTC
131 GAAGAAGGGAGTGAAGCATTC
50188032 AGTAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCATGTTTCCCCCCC
1 AGTAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCATGTTTCCCCCCC
50188097 CATTGCCGTGACTTGAGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCTAAATGAAAAGAG
66 CATTGCCGTGACTTGAGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCTAAATGAAAAGAG
50188162 GAAGAAGGGAGTGAAGCATTC
131 GAAGAAGGGAGTGAAGCATTC
50188183 AGT
1 AGT
50188186 TATCCTAGGT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 152 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (151 bp):
AGTAATAAAGTAATGAAAAGAGAGGGGTGATGAAAACAAAGTTGTCTCATCCATGTTTCCCCCCC
CATTGCCGTGACTTGAGGAAGAAAGAAAAGAAGAAATCGGTTCTTCTTGGCCTAAATGAAAAGAG
GAAGAAGGGAGTGAAGCATTC
Found at i:50189686 original size:40 final size:40
Alignment explanation
Indices: 50189631--50189892 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
50189621 GATGATAACG
* * *
50189631 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCT
50189671 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
50189711 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
50189751 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* *
50189791 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
** * *
50189831 GGGCTAAGTCCCGAAGGCAAATGAGCAAG-TAGCTATATC-
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCT
* * *
50189870 CGGCTAAATTCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
50189893 GTTTGGGAAT
Statistics
Matches: 205, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 20 0.10
40 184 0.90
41 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
Found at i:50191657 original size:29 final size:29
Alignment explanation
Indices: 50191615--50191677 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
50191605 GGAGTTAAAA
*
50191615 AAGAATGAGGACTTTTAATTATATCAAGT
1 AAGACTGAGGACTTTTAATTATATCAAGT
50191644 AAGACTGAGGACTTTTAATTATATCAAGT
1 AAGACTGAGGACTTTTAATTATATCAAGT
50191673 AAGAC
1 AAGAC
50191678 CTTATGAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (29 bp):
AAGACTGAGGACTTTTAATTATATCAAGT
Found at i:50201548 original size:19 final size:18
Alignment explanation
Indices: 50201515--50201551 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
50201505 ATTTTTTTTC
50201515 TTAAATTAAACATTAAAA
1 TTAAATTAAACATTAAAA
*
50201533 TTAAATTTAAATATTAAAA
1 TTAAA-TTAAACATTAAAA
50201552 GTGTTTGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAATTAAACATTAAAA
Found at i:50208482 original size:12 final size:12
Alignment explanation
Indices: 50208435--50208484 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
50208425 ACTTAATCAC
50208435 TTTAATATTAAA
1 TTTAATATTAAA
50208447 -TTAATA-TAACA
1 TTTAATATTAA-A
*
50208458 TTTATCTTATTAAA
1 TTTA--ATATTAAA
50208472 TTTAATATTAAA
1 TTTAATATTAAA
50208484 T
1 T
50208485 CTTATCAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 11 0.35
14 7 0.23
15 3 0.10
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:50210717 original size:20 final size:20
Alignment explanation
Indices: 50210692--50210736 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
50210682 AGGGACTAAA
* *
50210692 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
50210712 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
50210732 ATGAA
1 ATGAA
50210737 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:50212869 original size:92 final size:92
Alignment explanation
Indices: 50212749--50212976 Score: 321
Period size: 92 Copynumber: 2.5 Consensus size: 92
50212739 GCGTAGGTAG
* * * *
50212749 CGTACATATAGTACAGTGCAATGCGGTAATCTGCTATATCGATAGATTGCAGTAAAACTGCCAGT
1 CGTACATGTGGTACAGTGCAATGCGGTAATCTGCTATACCGATAGATTGCAATAAAACTGCCAGT
*
50212814 TCAGTCAATGGTATATAACATAACTAA
66 TCAGTCAATGGTACATAACATAACTAA
* * *
50212841 GGTACATGTGGTACAGTGCTATGCGGTAATCTGCTATACCGATAGATTGCAATAAAACTGTCAGT
1 CGTACATGTGGTACAGTGCAATGCGGTAATCTGCTATACCGATAGATTGCAATAAAACTGCCAGT
* * * *
50212906 TCAGTCAATGGTACGTAGCGTAGCTAA
66 TCAGTCAATGGTACATAACATAACTAA
* * *
50212933 CGTATATGCGGTACAGTGCAATGCGGTAATCTGCTATACTGATA
1 CGTACATGTGGTACAGTGCAATGCGGTAATCTGCTATACCGATA
50212977 TGATGTCATC
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 119 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (92 bp):
CGTACATGTGGTACAGTGCAATGCGGTAATCTGCTATACCGATAGATTGCAATAAAACTGCCAGT
TCAGTCAATGGTACATAACATAACTAA
Found at i:50215605 original size:27 final size:27
Alignment explanation
Indices: 50215563--50215687 Score: 102
Period size: 27 Copynumber: 4.9 Consensus size: 27
50215553 GCAAGTTCAT
* *
50215563 TGATTTGGCTTCGGGCCATGATATTAA
1 TGATTTGGGTTCGGGCCATGATATCAA
* *
50215590 TGATTTGGGTTTGGGCCATGATAAT-AG
1 TGATTTGGGTTCGGGCCATGAT-ATCAA
* * * * * *
50215617 T-ACTT-AG-T-GTGCGA-GTTA-CAT
1 TGATTTGGGTTCGGGCCATGATATCAA
50215638 TGATTTGGGTTCGGGCCATGATATCAA
1 TGATTTGGGTTCGGGCCATGATATCAA
50215665 TGATTTGGGTTCGGGCCATGATA
1 TGATTTGGGTTCGGGCCATGATA
50215688 GTAGCACTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
21 3 0.04
22 5 0.07
23 5 0.07
24 2 0.03
25 5 0.07
26 6 0.08
27 47 0.63
28 2 0.03
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.36
Consensus pattern (27 bp):
TGATTTGGGTTCGGGCCATGATATCAA
Found at i:50215645 original size:75 final size:75
Alignment explanation
Indices: 50215540--50215727 Score: 281
Period size: 75 Copynumber: 2.5 Consensus size: 75
50215530 CTATATATAT
* * *
50215540 TAGCACTTAGTGTGCAAGTT-CATTGATTTGGCTTCGGGCCATGATATTAATGATTTGGGTTTGG
1 TAGCACTTAGTGTGCGAGTTACATTGATTTGGCTTCGGGCCATGATATCAATGATTTGGGTTCGG
50215604 GCCATGATAA
66 GCCATGATAA
* *
50215614 TAGTACTTAGTGTGCGAGTTACATTGATTTGGGTTCGGGCCATGATATCAATGATTTGGGTTCGG
1 TAGCACTTAGTGTGCGAGTTACATTGATTTGGCTTCGGGCCATGATATCAATGATTTGGGTTCGG
*
50215679 GCCATGATAG
66 GCCATGATAA
* *
50215689 TAGCACTTTG-GTTACGAGTTACATTGATTTGGCTTCGGG
1 TAGCACTTAGTG-TGCGAGTTACATTGATTTGGCTTCGGG
50215728 TAAATTGAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
74 19 0.19
75 83 0.81
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (75 bp):
TAGCACTTAGTGTGCGAGTTACATTGATTTGGCTTCGGGCCATGATATCAATGATTTGGGTTCGG
GCCATGATAA
Found at i:50217436 original size:30 final size:30
Alignment explanation
Indices: 50217402--50217459 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
50217392 CTAACCACGA
*
50217402 TGAACAACATTTGATTTTTGTGTTTTACGG
1 TGAACAACATTTGATTTGTGTGTTTTACGG
50217432 TGAACAACATTTGATTTGTGTGTTTTAC
1 TGAACAACATTTGATTTGTGTGTTTTAC
50217460 TCATCCATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.47
Consensus pattern (30 bp):
TGAACAACATTTGATTTGTGTGTTTTACGG
Found at i:50218166 original size:46 final size:46
Alignment explanation
Indices: 50218066--50218237 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
50218056 ACTCGTAGCT
* * * **
50218066 GATGCATGTCCCAGACATGTCTTACACTGGCT-TGCATCTCGAGGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAATGCC
50218112 GATGCATGTCCCAGACATGTCTTACACT-GCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCC
* *
50218157 GATGCCATGTCCCA-AAATTGGTCTTACACTGGCTCTCG--TAATATGACC
1 GATG-CATGTCCCAGACA-T-GTCTTACACTGGCTCTCGTCTCA-ATG-CC
* *
50218205 GATGCATGTCCCAGACATATCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTC
50218238 ACAATAATCC
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
45 16 0.15
46 54 0.50
47 23 0.21
48 15 0.14
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAATGCC
Found at i:50221230 original size:40 final size:40
Alignment explanation
Indices: 50221175--50221256 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
50221165 TGGCTAAATT
*
50221175 ACGTAATGATATCTCTTCTTTTGTGCAGATGGATTTAGAA
1 ACGTAATGATATCTCTTATTTTGTGCAGATGGATTTAGAA
50221215 ACGTAATGATATCTCTTATTTTGTGCAGATGGATTTAGAA
1 ACGTAATGATATCTCTTATTTTGTGCAGATGGATTTAGAA
50221255 AC
1 AC
50221257 ACTGTACGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (40 bp):
ACGTAATGATATCTCTTATTTTGTGCAGATGGATTTAGAA
Found at i:50222471 original size:31 final size:31
Alignment explanation
Indices: 50222433--50222494 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50222423 AAGATCTAGG
50222433 AAGTTTTACGATTCCTTGTTTTATTGGTAGC
1 AAGTTTTACGATTCCTTGTTTTATTGGTAGC
50222464 AAGTTTTACGATTCCTTGTTTTATTGGTAGC
1 AAGTTTTACGATTCCTTGTTTTATTGGTAGC
50222495 TTAGATGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (31 bp):
AAGTTTTACGATTCCTTGTTTTATTGGTAGC
Found at i:50233538 original size:39 final size:40
Alignment explanation
Indices: 50233443--50233704 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
50233433 TTGAATGATG
*
50233443 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
50233481 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
50233522 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
50233561 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
50233600 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
50233639 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
50233678 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
50233705 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:50241545 original size:40 final size:40
Alignment explanation
Indices: 50241456--50241719 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
50241446 TTGAATGATG
* *
50241456 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
50241495 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
50241535 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50241574 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
50241614 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
50241654 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
50241695 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50241720 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50241737 original size:120 final size:118
Alignment explanation
Indices: 50241456--50241752 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
50241446 TTGAATGATG
* *
50241456 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
50241516 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
50241574 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
50241639 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
50241695 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
50241753 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:50244227 original size:46 final size:46
Alignment explanation
Indices: 50244130--50244343 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 46
50244120 ATGCCTACGT
* * *
50244130 CATGTCCCGGACATGGTCTTACACTAGCT-TTA-CTTGTA-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AGGCTGATG
*
50244175 CATGTCCCAGACATGTCTTACACTGGCT-TGCATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAGGCTGATG
* * * *
50244221 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATG-TCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCT-GATG
* * * * *
50244267 CCATGTCCC-GAACATGGTCTTACAGTAGCTCTCGTAAT-GTGGCCGATG
1 -CATGTCCCAG-ACAT-GTCTTACACTAGCTCTCAT-CTCGAGGCTGATG
50244315 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
50244344 AAATAATCCA
Statistics
Matches: 141, Mismatches: 17, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
44 14 0.10
45 16 0.11
46 61 0.43
47 25 0.18
48 24 0.17
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCTGATG
Found at i:50255939 original size:39 final size:39
Alignment explanation
Indices: 50255896--50256035 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 39
50255886 CTCGTTCAAG
* *
50255896 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
* *
50255935 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCACAC-AA
* * * *
50255975 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACAA
*
50256015 AGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
50256036 ACAGCATTCA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
38 2 0.02
39 31 0.38
40 39 0.48
41 9 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAA
Found at i:50263394 original size:40 final size:40
Alignment explanation
Indices: 50263305--50263485 Score: 181
Period size: 40 Copynumber: 4.5 Consensus size: 40
50263295 CTCGTTCAAG
* **
50263305 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAA
* *
50263344 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * *
50263384 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * * *
50263424 TGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAA
50263465 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAGCCCGGA
50263486 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 32 0.27
40 76 0.64
41 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
Found at i:50269154 original size:40 final size:40
Alignment explanation
Indices: 50269099--50269178 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
50269089 AAAAAATATC
50269099 GAATTATTTAGATTACTAATCAAGTTGATGAGAGATTTAA
1 GAATTATTTAGATTACTAATCAAGTTGATGAGAGATTTAA
50269139 GAATTATTTAGATTACTAATCAAGTTGATGAGAGATTTAA
1 GAATTATTTAGATTACTAATCAAGTTGATGAGAGATTTAA
50269179 CATGTCATAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (40 bp):
GAATTATTTAGATTACTAATCAAGTTGATGAGAGATTTAA
Found at i:50271314 original size:20 final size:21
Alignment explanation
Indices: 50271289--50271328 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50271279 CTCTTGAAAC
*
50271289 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
50271309 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
50271329 TCCCTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:50272578 original size:49 final size:49
Alignment explanation
Indices: 50272501--50272624 Score: 162
Period size: 49 Copynumber: 2.5 Consensus size: 49
50272491 ATACTAACGC
*
50272501 CATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAG-GTCGATG-
1 CATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGTG-GTGTCGATGT
* * * *
50272550 CTATGTCCTAGACAGGTCTTACATTGGCTCTCATCTATTGGTGTCGATGT
1 C-ATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTGGTGTCGATGT
50272600 CATGTCCCAGACAGGTCTTACACTG
1 CATGTCCCAGACAGGTCTTACACTG
50272625 ACACACAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
48 1 0.02
49 52 0.80
50 12 0.18
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTGGTGTCGATGT
Found at i:50272715 original size:48 final size:47
Alignment explanation
Indices: 50272644--50272858 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 47
50272634 AAGCTAACAC
* * *
50272644 CATGTCCCAGACAGGTCTTACACTAGCTTGCCTATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CATATCTCGAGGCTGATG
* * * * *
50272692 CATGTCCCAGGCATGTCTTACACTAGC-TC-TCGTCTCAACGCTTATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCAT-ATCTCGAGGCTGATG
* * * *
50272738 CATGTCCCAAACATGTCTTACTCTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-CATATCTCGAGGCTGATG
* * * *
50272786 CATGTCCCAGACATGTCTTTCACTGGCTTTCATAT-T-GTGGCTGATT
1 CATGTCCCAGACATGTCTTACACTAGC-TTCATATCTCGAGGCTGATG
*
50272832 CATGTCCCAGACATGTTTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
50272859 ACACATATCT
Statistics
Matches: 137, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 66 0.48
47 3 0.02
48 64 0.47
49 3 0.02
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.31
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCATATCTCGAGGCTGATG
Found at i:50272845 original size:46 final size:48
Alignment explanation
Indices: 50272644--50272855 Score: 166
Period size: 48 Copynumber: 4.5 Consensus size: 48
50272634 AAGCTAACAC
* * * *** *
50272644 CATGTCCCAGACAGGTCTTACACTAGCTTGCCTATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATG
* * * ** * * *
50272692 CATGTCCCAGGCATGTCTTACACTAGCTCT---CGTCTCAACGCTTATG
1 CATGTCCCAGACATGTCTTTCACTGGCT-TAAATATCTCGAGGCTGATG
* * *
50272738 CATGTCCCAAACATGTCTTACTCTGGCTTAAATATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATG
** * *
50272786 CATGTCCCAGACATGTCTTTCACTGGCTTTCATAT-T-GTGGCTGATT
1 CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATG
50272832 CATGTCCCAGACATGT-TTTACACT
1 CATGTCCCAGACATGTCTTT-CACT
50272856 AGCACACATA
Statistics
Matches: 135, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
45 4 0.03
46 62 0.46
47 1 0.01
48 67 0.50
49 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.32
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTTCACTGGCTTAAATATCTCGAGGCTGATG
Found at i:50272867 original size:94 final size:94
Alignment explanation
Indices: 50272644--50272869 Score: 245
Period size: 94 Copynumber: 2.4 Consensus size: 94
50272634 AAGCTAACAC
* * * *
50272644 CATGTCCCAGACAGGTCTTACACTAGCTTGCCTATCTCGAGGCCGATGCATGTCCCAGGCATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTACATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * *
50272709 TTACACTAGCTCTCGTCTCAACGCTTATG
66 TTACACTAGCTCTCATATCAACGCTGATG
* * * * *
50272738 CATGTCCCAAACATGTCTTACTCTGGCTTAAATATCTCGAGGCTGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTACATATCTCGAGGCCGATGCATGTCCCAGACATGTC
* * * **** *
50272803 TTTCACTGGCTTTCATATTGTGGCTGATT
66 TTACACTAGCTCTCATATCAACGCTGATG
* **
50272832 CATGTCCCAGACATGTTTTACACTAGCACACATATCTC
1 CATGTCCCAGACATGTCTTACACTAGCTTACATATCTC
50272870 CCAATATTAA
Statistics
Matches: 105, Mismatches: 27, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
94 105 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATATCTCGAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTCTCATATCAACGCTGATG
Found at i:50276988 original size:22 final size:21
Alignment explanation
Indices: 50276962--50277013 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
50276952 CAAGTTTCCT
50276962 TTATATTAATTGGTTATCATTA
1 TTATATTAATTGGTTATCA-TA
**
50276984 TTATA-T-ATTTTTTATCATA
1 TTATATTAATTGGTTATCATA
50277003 TTGATATTAAT
1 TT-ATATTAAT
50277014 ATGTATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 2 0.08
22 7 0.28
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
TTATATTAATTGGTTATCATA
Found at i:50283680 original size:22 final size:22
Alignment explanation
Indices: 50283655--50283700 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
50283645 TTTAACTTTA
* *
50283655 TTTATATATTCTTTAGAATTTT
1 TTTAAATATTCTTTAAAATTTT
* *
50283677 TTTAAATTTTTTTTAAAATTTT
1 TTTAAATATTCTTTAAAATTTT
50283699 TT
1 TT
50283701 AAAAATATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTAAATATTCTTTAAAATTTT
Found at i:50283705 original size:11 final size:11
Alignment explanation
Indices: 50283666--50283706 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
50283656 TTATATATTC
*
50283666 TTTAGAATTTT
1 TTTAAAATTTT
*
50283677 TTTAAATTTTT
1 TTTAAAATTTT
50283688 TTTAAAATTTT
1 TTTAAAATTTT
*
50283699 TTAAAAAT
1 TTTAAAAT
50283707 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:50283740 original size:27 final size:27
Alignment explanation
Indices: 50283710--50283769 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
50283700 TAAAAATATA
*
50283710 AATTTT-ATATTT-TTTATAAATATTTTG
1 AATTTTAAAATTTATTTA-AAAT-TTTTG
50283737 AATTTTAAAATTTATTTAAAATTTTTG
1 AATTTTAAAATTTATTTAAAATTTTTG
50283764 AATTTT
1 AATTTT
50283770 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 17 0.57
28 9 0.30
29 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
AATTTTAAAATTTATTTAAAATTTTTG
Found at i:50283865 original size:9 final size:9
Alignment explanation
Indices: 50283851--50283889 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
50283841 ACACCAATCT
50283851 ATTATTTGA
1 ATTATTTGA
*
50283860 ATTATTAGA
1 ATTATTTGA
50283869 ATTATTTGA
1 ATTATTTGA
* *
50283878 GTTATTCGA
1 ATTATTTGA
50283887 ATT
1 ATT
50283890 GTAAAACTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (9 bp):
ATTATTTGA
Found at i:50283874 original size:18 final size:18
Alignment explanation
Indices: 50283851--50283889 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
50283841 ACACCAATCT
50283851 ATTATTTGAATTATTAGA
1 ATTATTTGAATTATTAGA
* *
50283869 ATTATTTGAGTTATTCGA
1 ATTATTTGAATTATTAGA
50283887 ATT
1 ATT
50283890 GTAAAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (18 bp):
ATTATTTGAATTATTAGA
Found at i:50288051 original size:20 final size:21
Alignment explanation
Indices: 50288013--50288051 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50288003 ATTTTGAAAT
50288013 TTCCACATGGTCGTGTAACCC
1 TTCCACATGGTCGTGTAACCC
50288034 TTCCACATGGTC-TGTAAC
1 TTCCACATGGTCGTGTAAC
50288052 ATCCATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.31
Consensus pattern (21 bp):
TTCCACATGGTCGTGTAACCC
Found at i:50299707 original size:5 final size:5
Alignment explanation
Indices: 50299697--50299721 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50299687 GTCAACTCCT
50299697 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
50299722 AATTACAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:50306299 original size:17 final size:17
Alignment explanation
Indices: 50306259--50306306 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
50306249 CATTGATATG
50306259 CATATAATATATACACA
1 CATATAATATATACACA
*
50306276 CACATAATATATACACA
1 CATATAATATATACACA
50306293 -ATTATAATAATATA
1 CA-TATAAT-ATATA
50306307 AAATTAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 1 0.04
17 21 0.78
18 5 0.19
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (17 bp):
CATATAATATATACACA
Found at i:50309466 original size:26 final size:26
Alignment explanation
Indices: 50309428--50309511 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
50309418 CATGAAATTC
* *
50309428 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
50309454 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
50309480 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
50309506 TTATCA
1 TTATCA
50309512 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:50310119 original size:22 final size:22
Alignment explanation
Indices: 50310094--50310135 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50310084 CATAAAATTA
50310094 AAAAAGAA-AAACGAATCAATCC
1 AAAAAGAATAAA-GAATCAATCC
*
50310116 AAAAATAATAAAGAATCAAT
1 AAAAAGAATAAAGAATCAAT
50310136 TCATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAGAATAAAGAATCAATCC
Found at i:50317037 original size:112 final size:116
Alignment explanation
Indices: 50316921--50317131 Score: 270
Period size: 112 Copynumber: 1.9 Consensus size: 116
50316911 AAACTATATG
* * * * ** *
50316921 ATACATACTTTAACATTTTATAC-AAATATAATATAGAAAATGAT-AA-ATAACGACATAAATTA
1 ATACATACATT-ACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTA
* *
50316983 CAT-A-ATATACATTAACATTTCATGCAGATATAATCATAAATAACATAAAT
65 CATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
* *
50317033 ATACATACATTACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTAC
1 ATACATACATTACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTAC
*
50317098 ATAATATATACAATAATATTTCATGCAAATATAA
66 ATAATATATACAATAACATTTCATGCAAATATAA
50317132 CTTAAAATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
111 9 0.11
112 27 0.33
113 2 0.02
114 17 0.21
115 1 0.01
116 26 0.32
ACGTcount: A:0.53, C:0.12, G:0.04, T:0.31
Consensus pattern (116 bp):
ATACATACATTACATTTCATACAAAATACAACATAGAAAACAATGAATATAACAACATAAATTAC
ATAATATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAAT
Found at i:50317319 original size:14 final size:15
Alignment explanation
Indices: 50317293--50317341 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
50317283 TGAACATATA
*
50317293 AAATATAAAAAAAAT
1 AAATACAAAAAAAAT
*
50317308 AAATAC-AAAAAACT
1 AAATACAAAAAAAAT
50317322 AAATACAATAAAAAAT
1 AAATACAA-AAAAAAT
50317338 AAAT
1 AAAT
50317342 GAGGTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 10 0.34
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAATACAAAAAAAAT
Found at i:50317360 original size:34 final size:30
Alignment explanation
Indices: 50317291--50317360 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 30
50317281 TATGAACATA
*
50317291 TAAAATATAAAAAAAATAAATACAAAAAAC
1 TAAAATACAAAAAAAATAAATACAAAAAAC
*
50317321 T-AAATACAATAAAAAATAAATGAGGTAAAAAAC
1 TAAAATACAA-AAAAAATAAAT-A--CAAAAAAC
50317354 TAAAATA
1 TAAAATA
50317361 TTTAAAACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 7 0.21
30 12 0.36
31 1 0.03
33 8 0.24
34 5 0.15
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (30 bp):
TAAAATACAAAAAAAATAAATACAAAAAAC
Found at i:50317678 original size:20 final size:19
Alignment explanation
Indices: 50317613--50317721 Score: 84
Period size: 19 Copynumber: 5.8 Consensus size: 19
50317603 AAACAAAACA
*
50317613 ATATAATATATAATAGAAT
1 ATATAATATATAATAAAAT
* *
50317632 A-AAAATAATATAAT-GAAT
1 ATATAAT-ATATAATAAAAT
*
50317650 A-AT-ATATATAGTAAAAT
1 ATATAATATATAATAAAAT
50317667 GATATAATATATAATAAAAT
1 -ATATAATATATAATAAAAT
*
50317687 ATATAA-ATAAAATATAAAT
1 ATATAATATATAATA-AAAT
* *
50317706 AATATGATAAATAATA
1 -ATATAATATATAATA
50317722 CATAAATAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
16 6 0.08
17 5 0.07
18 18 0.25
19 20 0.27
20 18 0.25
21 6 0.08
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
ATATAATATATAATAAAAT
Found at i:50317701 original size:23 final size:24
Alignment explanation
Indices: 50317670--50317732 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
50317660 GTAAAATGAT
*
50317670 ATAATATATAATAAAATAT-ATAA
1 ATAAAATATAATAAAATATGATAA
*
50317693 ATAAAATATAA-ATAATATGATAA
1 ATAAAATATAATAAAATATGATAA
50317716 ATAATACATA-AATAAAA
1 ATAA-A-ATATAATAAAA
50317733 ATAATATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 6 0.18
23 18 0.55
24 3 0.09
25 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
ATAAAATATAATAAAATATGATAA
Found at i:50317717 original size:12 final size:11
Alignment explanation
Indices: 50317615--50317749 Score: 88
Period size: 11 Copynumber: 12.5 Consensus size: 11
50317605 ACAAAACAAT
50317615 ATAATATAT-A
1 ATAATATATAA
*
50317625 ATAGA-ATAAAA
1 ATA-ATATATAA
*
50317636 ATAATATAATGA
1 ATAATAT-ATAA
50317648 ATAATATATATA
1 ATAATATATA-A
* *
50317660 GTAA-A-ATGAT
1 ATAATATAT-AA
50317670 ATAATATATAA
1 ATAATATATAA
*
50317681 TAAAATATATAA
1 -ATAATATATAA
*
50317693 ATAAAATATAA
1 ATAATATATAA
50317704 ATAATATGATAA
1 ATAATAT-ATAA
*
50317716 ATAATACATAA
1 ATAATATATAA
*
50317727 ATAA-AAAT-A
1 ATAATATATAA
50317736 AT-ATATAT-A
1 ATAATATATAA
50317745 ATAAT
1 ATAAT
50317750 TTTTTACATA
Statistics
Matches: 98, Mismatches: 15, Indels: 24
0.72 0.11 0.18
Matches are distributed among these distances:
8 1 0.01
9 9 0.09
10 17 0.17
11 36 0.37
12 35 0.36
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:50317721 original size:15 final size:14
Alignment explanation
Indices: 50317630--50317749 Score: 78
Period size: 12 Copynumber: 8.6 Consensus size: 14
50317620 ATATAATAGA
50317630 ATAAA-AATAATAT
1 ATAAATAATAATAT
*
50317643 AATGAATAATATATAT
1 -ATAAATAATA-ATAT
50317659 AGTAAAATGATATAATAT
1 A-T-AAAT-A-ATAATAT
50317677 AT-AATAA-AATAT
1 ATAAATAATAATAT
50317689 ATAAAT-A-AA-AT
1 ATAAATAATAATAT
*
50317700 ATAAATAAT-AT-G
1 ATAAATAATAATAT
*
50317712 ATAAATAATACATAA
1 ATAAATAATA-ATAT
50317727 ATAAA-AATAATAT
1 ATAAATAATAATAT
50317740 ATATAATAAT
1 ATA-AATAAT
50317750 TTTTTACATA
Statistics
Matches: 86, Mismatches: 5, Indels: 29
0.72 0.04 0.24
Matches are distributed among these distances:
11 8 0.09
12 21 0.24
13 10 0.12
14 13 0.15
15 16 0.19
16 5 0.06
17 4 0.05
18 6 0.07
19 3 0.03
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAAATAATAATAT
Found at i:50317727 original size:34 final size:33
Alignment explanation
Indices: 50317615--50317749 Score: 122
Period size: 34 Copynumber: 4.2 Consensus size: 33
50317605 ACAAAACAAT
* * *
50317615 ATAATATAT-AATAGAATAAAAATAATATAATGA
1 ATAATATATAAATAAAATATAAATAATAT-ATAA
*
50317648 ATAATATATATAGTAAAATGAT--ATAATATATAA
1 ATAATATATA-AATAAAAT-ATAAATAATATATAA
*
50317681 TAAAATATATAAATAAAATATAAATAATATGATAA
1 -ATAATATATAAATAAAATATAAATAATAT-ATAA
*
50317716 ATAATACATAAATAAAA-AT-AAT-ATATAT-A
1 ATAATATATAAATAAAATATAAATAATATATAA
50317745 ATAAT
1 ATAAT
50317750 TTTTTACATA
Statistics
Matches: 87, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
29 6 0.07
30 2 0.02
31 4 0.05
32 5 0.06
33 21 0.24
34 38 0.44
35 10 0.11
36 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (33 bp):
ATAATATATAAATAAAATATAAATAATATATAA
Found at i:50317749 original size:68 final size:67
Alignment explanation
Indices: 50317612--50317749 Score: 163
Period size: 68 Copynumber: 2.0 Consensus size: 67
50317602 AAAACAAAAC
* * * * * *
50317612 AATATAATATATAATAGAATAAAAATAATATAATGAATAATATATATAGTAAAATGATATAATAT
1 AATAAAATATATAATAAAATAAAAATAATATAATAAATAATACATATAATAAAATAATATAATAT
50317677 AT
66 AT
* *
50317679 AATAAAATATATAAATAAAATATAAATAATATGATAAATAATACATA-AATAAAAATAATAT-AT
1 AATAAAATATAT-AATAAAATAAAAATAATATAATAAATAATACATATAAT-AAAATAATATAAT
50317742 ATAAT
64 AT-AT
50317747 AAT
1 AAT
50317750 TTTTTACATA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
67 17 0.28
68 43 0.72
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (67 bp):
AATAAAATATATAATAAAATAAAAATAATATAATAAATAATACATATAATAAAATAATATAATAT
AT
Found at i:50317774 original size:19 final size:21
Alignment explanation
Indices: 50317736--50317774 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50317726 AATAAAAATA
*
50317736 ATATATATAATAATTTTTTAC
1 ATATATATAATAATTGTTTAC
50317757 ATATATA-AATAA-TGTTTA
1 ATATATATAATAATTGTTTA
50317775 TAGTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATATATAATAATTGTTTAC
Found at i:50317808 original size:25 final size:24
Alignment explanation
Indices: 50317780--50317832 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
50317770 GTTTATAGTA
*
50317780 AAAATAAAT-AATATATAAAATATTT
1 AAAATAAATAAAT-TATAAAA-AATT
50317805 AAAATAAATAAATTATAAAAAATT
1 AAAATAAATAAATTATAAAAAATT
50317829 AAAA
1 AAAA
50317833 GGATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 16 0.62
26 3 0.12
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAATAAATAAATTATAAAAAATT
Found at i:50320170 original size:26 final size:26
Alignment explanation
Indices: 50320141--50320250 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
50320131 CATGAAATTC
*
50320141 TTATCATGAAACATTTACATAATCC-A
1 TTATCATGAAACATTTACCTAA-CCTA
*
50320167 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
50320193 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
50320219 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
50320245 TTATCA
1 TTATCA
50320251 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 2 0.03
26 78 0.98
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:50321830 original size:45 final size:46
Alignment explanation
Indices: 50321753--50322013 Score: 167
Period size: 45 Copynumber: 5.8 Consensus size: 46
50321743 CTCCTTATCA
*
50321753 AATACAGAGACGC-AAATCTG-CTATCTTCGATCTGCTCCCCGTCT
1 AATACAGAGACACTAAATCTGTCTATCTTCGATCTGCTCCCCGTCT
* *
50321797 AATACAGAGACACTAAATCTGTC-ATCTTCGATCTGCT--TCGATGT
1 AATACAGAGACACTAAATCTGTCTATCTTCGATCTGCTCCCCG-TCT
* * *
50321841 AA-ACACATGA-ATGTCAGAT-T-TACTATCTTCGATCTGCTCCCCGTCT
1 AATACAGA-GACA-CT-AAATCTGT-CTATCTTCGATCTGCTCCCCGTCT
* * * * *
50321887 AATACATAGACGCCAAATCTG-CTATCTTCGATCTGCT--TCGATGT
1 AATACAGAGACACTAAATCTGTCTATCTTCGATCTGCTCCCCG-TCT
* * * *
50321931 AA-ACACACGA-ATGTTAGATCT-ACTATCTTCGATCTGCTCCCCGTCT
1 AATACAGA-GACA--CTAAATCTGTCTATCTTCGATCTGCTCCCCGTCT
* * *
50321977 AATATAGAGACACCAAATCTGTC-AGCTTCGATCTGCT
1 AATACAGAGACACTAAATCTGTCTATCTTCGATCTGCT
50322014 TCGATGTAAA
Statistics
Matches: 164, Mismatches: 29, Indels: 47
0.68 0.12 0.20
Matches are distributed among these distances:
43 14 0.09
44 27 0.16
45 96 0.59
46 15 0.09
47 12 0.07
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (46 bp):
AATACAGAGACACTAAATCTGTCTATCTTCGATCTGCTCCCCGTCT
Found at i:50321926 original size:90 final size:90
Alignment explanation
Indices: 50321768--50322267 Score: 768
Period size: 90 Copynumber: 5.6 Consensus size: 90
50321758 AGAGACGCAA
* * *
50321768 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGTCATCTTCGATCTGC
1 ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGC
*
50321833 TTCGATGTAAACACATGAATGTCAG
66 TTCGATGTAAACACACGAATGTCAG
* *
50321858 ATTTACTATCTTCGATCTGCTCCCCGTCTAATACATAGACGCCAAATCTG-CTATCTTCGATCTG
1 ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC-ATCTTCGATCTG
*
50321922 CTTCGATGTAAACACACGAATGTTAG
65 CTTCGATGTAAACACACGAATGTCAG
* * *
50321948 ATCTACTATCTTCGATCTGCTCCCCGTCTAATATAGAGACACCAAATCTGTCAGCTTCGATCTGC
1 ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGC
50322013 TTCGATGTAAACACACGAATGTCAG
66 TTCGATGTAAACACACGAATGTCAG
* * * * * * *
50322038 ATCTACTATCTTTGATCTACTTCCCGTCTAATACAGAGATGCCAAATTTGTAATCTTCAATCTGC
1 ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGC
*
50322103 TTCGATGTAAACACACGAATGTTAG
66 TTCGATGTAAACACACGAATGTCAG
* * *
50322128 ATCTACTATCTCCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGC
1 ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGC
*
50322193 TTCGATGTAAACACATGAATGTCAG
66 TTCGATGTAAACACACGAATGTCAG
* *
50322218 ATCTACTATCTTCAATCTGCTCCCCGTCTAATACAGAAACGCCAAATCTG
1 ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
50322268 CTTCCTCGAT
Statistics
Matches: 369, Mismatches: 39, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
89 1 0.00
90 367 0.99
91 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (90 bp):
ATCTACTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGC
TTCGATGTAAACACACGAATGTCAG
Found at i:50322055 original size:45 final size:44
Alignment explanation
Indices: 50321820--50322238 Score: 248
Period size: 45 Copynumber: 9.3 Consensus size: 44
50321810 TAAATCTGTC
*
50321820 ATCTTCGATCTGCTTCGATGTAAACACATGAATGTCAGATTTACT
1 ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* * * * * * *
50321865 ATCTTCGATCTGCTCCCCG-TCTAATACATAG-ACGCCAAATCTGCT
1 ATCTTCGATCTGCT--TCGATGTAA-ACACAGAATGTCAGATCTACT
*
50321910 ATCTTCGATCTGCTTCGATGTAAACACACGAATGTTAGATCTACT
1 ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* * * * * * *
50321955 ATCTTCGATCTGCTCCCCG-TCTAATATAGAGACA--CCAAATCT-GT
1 ATCTTCGATCTGCT--TCGATGTAA-ACACAGA-ATGTCAGATCTACT
*
50321999 CAGCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTACT
1 -ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* * * * * * **
50322045 ATCTTTGATCTACTTCCCG-TCT-AATACAGAGATGCCAAAT-TTGT
1 ATCTTCGATCTGCTT--CGATGTAAACACAGA-ATGTCAGATCTACT
* *
50322089 AATCTTCAATCTGCTTCGATGTAAACACACGAATGTTAGATCTACT
1 -ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
* *** * * * * *
50322135 ATCTCCGATCTG-TTCCCCGTCTAATACAGAGATGCCAAATCT-GT
1 ATCTTCGATCTGCTTCGATGT-AAACACAGA-ATGTCAGATCTACT
50322179 CATCTTCGATCTGCTTCGATGTAAACACATGAATGTCAGATCTACT
1 -ATCTTCGATCTGCTTCGATGTAAACACA-GAATGTCAGATCTACT
*
50322225 ATCTTCAATCTGCT
1 ATCTTCGATCTGCT
50322239 CCCCGTCTAA
Statistics
Matches: 272, Mismatches: 72, Indels: 60
0.67 0.18 0.15
Matches are distributed among these distances:
43 14 0.05
44 26 0.10
45 192 0.71
46 26 0.10
47 14 0.05
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (44 bp):
ATCTTCGATCTGCTTCGATGTAAACACAGAATGTCAGATCTACT
Found at i:50333381 original size:14 final size:14
Alignment explanation
Indices: 50333334--50333381 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
50333324 GTACGACTGG
*
50333334 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
50333348 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
50333362 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
50333376 ATTGGT
1 AATGGT
50333382 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:50335604 original size:14 final size:15
Alignment explanation
Indices: 50335578--50335626 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
50335568 TGAACATATA
*
50335578 AAATATAAAAAAAAT
1 AAATACAAAAAAAAT
*
50335593 AAATAC-AAAAAATT
1 AAATACAAAAAAAAT
50335607 AAATACAATAAAAAAT
1 AAATACAA-AAAAAAT
50335623 AAAT
1 AAAT
50335627 GAGGTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 13 0.45
15 6 0.21
16 10 0.34
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (15 bp):
AAATACAAAAAAAAT
Done.