Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 171 of 290
Found at i:58709199 original size:27 final size:27
Alignment explanation
Indices: 58709151--58709721 Score: 672
Period size: 27 Copynumber: 21.2 Consensus size: 27
58709141 AAAGTACTCC
*
58709151 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58709178 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
58709205 CGATTTTA-A-AATTATCGTTTTACTCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
58709231 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58709258 C-AGTTTACAGAATTACCGTTTTACCTT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
58709285 CCG-TTTACAGAATTACTGTTTTACCCT
1 -CGATTTACAGAATTACCGTTTTACCCT
* *
58709312 CGATTTATACAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
58709339 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58709366 C-ATTTTACAGAATTACCGTTCTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
58709393 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
58709420 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
58709447 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
58709474 CGATTTATAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
58709501 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
58709528 CGACTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
58709555 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
58709582 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
58709609 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58709636 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
58709663 TGATTTACAGAATTATCGTTTCACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58709690 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58709717 TGATT
1 CGATT
58709722 GTGAAATTAC
Statistics
Matches: 475, Mismatches: 56, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
25 4 0.01
26 26 0.05
27 437 0.92
28 8 0.02
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:58709756 original size:27 final size:27
Alignment explanation
Indices: 58709726--58709919 Score: 210
Period size: 27 Copynumber: 7.2 Consensus size: 27
58709716 TTGATTGTGA
58709726 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
58709753 AATTTCTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
58709780 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
58709807 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
58709834 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * *
58709861 AAATACCGAACTACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
58709888 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
58709915 AATTA
1 AATTA
58709920 TCATTTTGCC
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:58709791 original size:54 final size:54
Alignment explanation
Indices: 58709726--58709919 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
58709716 TTGATTGTGA
* * * *
58709726 AATTACTGAAATACCCCTGTAGGGTAGAATTTCTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
58709780 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
58709834 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAACTACCCCTGTAAGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
58709888 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTA
58709920 TCATTTTGCC
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 120 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:58710158 original size:27 final size:26
Alignment explanation
Indices: 58710120--58710202 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
58710110 CGGAGGAAGC
*
58710120 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
58710147 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
58710173 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
58710200 GTT
1 GTT
58710203 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:58710535 original size:27 final size:27
Alignment explanation
Indices: 58710513--58710586 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
58710503 TAGGTGGGTT
*
58710513 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
58710540 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* * *
58710567 TGTCACGATATTTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
58710587 CAGTCATGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:58710752 original size:6 final size:6
Alignment explanation
Indices: 58710729--58710842 Score: 80
Period size: 6 Copynumber: 19.3 Consensus size: 6
58710719 CTGTCACGAA
* * *
58710729 ATTCTA ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ---CTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* * *
58710774 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTTTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
58710823 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
58710843 AACGTTTCTT
Statistics
Matches: 85, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
3 3 0.04
5 6 0.07
6 69 0.81
7 6 0.07
8 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:58710782 original size:27 final size:27
Alignment explanation
Indices: 58710744--58710797 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
58710734 AATTCTGATT
58710744 CTGATTCTGTTACTAATACTGATTCTG
1 CTGATTCTGTTACTAATACTGATTCTG
* *
58710771 CTGATTCTGTTACTGATTCTGATTCTG
1 CTGATTCTGTTACTAATACTGATTCTG
58710798 ATTCTGTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (27 bp):
CTGATTCTGTTACTAATACTGATTCTG
Found at i:58714793 original size:79 final size:80
Alignment explanation
Indices: 58714676--58714841 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 80
58714666 TCAAAATCAT
* **
58714676 GCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAATGCATTTGTGCGAGATACTA-ATTTC
1 GCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTATA-ACC
58714740 GGGCTAAG-CCCGAAG
65 GGGCTAAGTCCCGAAG
* * ** *
58714755 GCATTTGTGCGAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTATAACC
*
58714819 GGGCTATGTCCCGAAG
65 GGGCTAAGTCCCGAAG
58714835 GCATTTG
1 GCATTTG
58714842 AACGAGTAGC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 59 0.79
80 15 0.20
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
GCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTATAACCG
GGCTAAGTCCCGAAG
Found at i:58714848 original size:40 final size:40
Alignment explanation
Indices: 58714676--58714841 Score: 212
Period size: 40 Copynumber: 4.2 Consensus size: 40
58714666 TCAAAATCAT
* * *
58714676 GCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAT
1 GCATTTGTGCGAGTTACTAAATCCGGGCTAAG-TCCCGAAG
* * *
58714716 GCATTTGTGCGAGATACTAATTTCGGGCTAAG-CCCGAAG
1 GCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
* *
58714755 GCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAG
1 GCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
*
58714795 GCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAG
1 GCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAG
58714835 GCATTTG
1 GCATTTG
58714842 AACGAGTAGC
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 32 0.29
40 77 0.69
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
GCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAG
Found at i:58714863 original size:79 final size:79
Alignment explanation
Indices: 58714676--58714864 Score: 181
Period size: 79 Copynumber: 2.4 Consensus size: 79
58714666 TCAAAATCAT
** * * * **
58714676 GCATTTGTGCGAGATACTAAATC-CGGACTAAGAT-CCGAATGCATTTGTGCGAGATACTAATTT
1 GCATTTGAACGAGTTACTAAATCTCGG-TTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATAC
58714739 CGGGCTAAGCCCGAAG
64 CGGGCTAAGCCCGAAG
** * *
58714755 GCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GCATTTGAACGAGTTACTAAATCTCGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACC
*
58714819 GGGCTATGTCCCGAAG
65 GGGCTAAG-CCCGAAG
*
58714835 GCATTTGAACGAG-TAGCTATATC-CGGTTAA
1 GCATTTGAACGAGTTA-CTAAATCTCGGTTAA
58714865 ATTCTGAAGG
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.03
79 64 0.69
80 26 0.28
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (79 bp):
GCATTTGAACGAGTTACTAAATCTCGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCG
GGCTAAGCCCGAAG
Found at i:58723626 original size:43 final size:43
Alignment explanation
Indices: 58723565--58723736 Score: 183
Period size: 43 Copynumber: 4.0 Consensus size: 43
58723555 AAAGCTCGTA
* * *
58723565 CGATGCCAACGTCTCAGACGTGGTCTTACATGCAATCAAATAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
58723608 CGATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-
1 CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCAAATAT
* * * * *
58723650 CGGTGCCGATGTCCCAGACATGGTCTTACACGAAATCTCAA-AT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATC-AAATAT
* *
58723693 CGATGCCAACG-CCCTAGACGTGGTCTTACATGAAATCACATAT
1 CGATGCCAACGTCCC-AGACGTGGTCTTACACGAAATCAAATAT
58723736 C
1 C
58723737 AAAAATACTA
Statistics
Matches: 107, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 38 0.36
43 68 0.64
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATAT
Found at i:58725961 original size:43 final size:43
Alignment explanation
Indices: 58725914--58726016 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
58725904 TTGGTTTTCA
58725914 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
58725957 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
58726000 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
58726017 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:58726033 original size:29 final size:29
Alignment explanation
Indices: 58725998--58726071 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
58725988 GTTGTGAGAT
* *
58725998 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
58726027 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58726056 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58726072 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58726503 original size:40 final size:41
Alignment explanation
Indices: 58726384--58726536 Score: 125
Period size: 40 Copynumber: 3.8 Consensus size: 41
58726374 ATGATGTTCA
* ** *
58726384 GGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCG
1 GGCTAAGTTCCGAAGAGCATTCATGCT-AGTGACTATATCCG
* * ** * * *
58726424 GACTAAGATCCGAAG-GCATTGGTGCGAGTTACTAAATCCG
1 GGCTAAGTTCCGAAGAGCATTCATGCTAGTGACTATATCCG
58726464 GGCTAAGTTCCGAAGAGCATTCATGCTAGTGA-TATATCCG
1 GGCTAAGTTCCGAAGAGCATTCATGCTAGTGACTATATCCG
* * * * *
58726504 TGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 GGCTAAGTTCCGAAGAGCATTCATGCTAGTGAC
58726537 GTGTATTCGG
Statistics
Matches: 90, Mismatches: 20, Indels: 5
0.78 0.17 0.04
Matches are distributed among these distances:
40 72 0.80
41 18 0.20
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (41 bp):
GGCTAAGTTCCGAAGAGCATTCATGCTAGTGACTATATCCG
Found at i:58727769 original size:27 final size:27
Alignment explanation
Indices: 58727730--58727896 Score: 167
Period size: 27 Copynumber: 6.2 Consensus size: 27
58727720 GCATGTGATC
* *
58727730 TACCCCTAGTTTGTAAAATTACTGAAA
1 TACCCCCAGTTTGTAAAATTACCGAAA
* *
58727757 TACCCCCACTTTGTAAAGTTACCGAAA
1 TACCCCCAGTTTGTAAAATTACCGAAA
* *
58727784 TACCCTCAGATTGTAAAATTACCGAAA
1 TACCCCCAGTTTGTAAAATTACCGAAA
* ***
58727811 TACCCTCAGTTTGTAAAATTATTAAAA
1 TACCCCCAGTTTGTAAAATTACCGAAA
* *
58727838 TACCCCGA-TTTGTAAAATTACCGTAA
1 TACCCCCAGTTTGTAAAATTACCGAAA
** * *
58727864 TA-CCCTTGTAGTGTAAAATTACTGAAA
1 TACCCCCAGT-TTGTAAAATTACCGAAA
58727891 TACCCC
1 TACCCC
58727897 TGTAGGGTAA
Statistics
Matches: 114, Mismatches: 23, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
25 3 0.03
26 17 0.15
27 91 0.80
28 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (27 bp):
TACCCCCAGTTTGTAAAATTACCGAAA
Found at i:58727880 original size:80 final size:80
Alignment explanation
Indices: 58727733--58727895 Score: 222
Period size: 80 Copynumber: 2.0 Consensus size: 80
58727723 TGTGATCTAC
* * *
58727733 CCCTAGTTTGTAAAATTACTGAAATACCCCCACTTTGTAAAGTTACCGAAATACCCTCAGATTGT
1 CCCTAGTTTGTAAAATTACTAAAATACCCCCACTTTGTAAAATTACCGAAATACCCTCAGAGTGT
58727798 AAAATTACCGAAATA
66 AAAATTACCGAAATA
* * * *
58727813 CCCTCAGTTTGTAAAATTATTAAAATACCCCGA-TTTGTAAAATTACCGTAATACCCT-TGTAGT
1 CCCT-AGTTTGTAAAATTACTAAAATACCCCCACTTTGTAAAATTACCGAAATACCCTCAG-AGT
*
58727876 GTAAAATTACTGAAATA
64 GTAAAATTACCGAAATA
58727893 CCC
1 CCC
58727896 CTGTAGGGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 1 0.01
80 47 0.64
81 25 0.34
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (80 bp):
CCCTAGTTTGTAAAATTACTAAAATACCCCCACTTTGTAAAATTACCGAAATACCCTCAGAGTGT
AAAATTACCGAAATA
Found at i:58727906 original size:27 final size:27
Alignment explanation
Indices: 58727849--58727909 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
58727839 ACCCCGATTT
* * *
58727849 GTAAAATTACCGTAATACCCTTGTAGT
1 GTAAAATTACCGAAATACCCCTGTAGG
*
58727876 GTAAAATTACTGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
58727903 GTAAAAT
1 GTAAAAT
58727910 GACTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGTAGG
Found at i:58727907 original size:80 final size:81
Alignment explanation
Indices: 58727742--58727914 Score: 199
Period size: 80 Copynumber: 2.1 Consensus size: 81
58727732 CCCCTAGTTT
* * *
58727742 GTAAAATTACTGAAATACCCCCACTTTGTAAAGTTACCGAAATACCCTCAGATTGTAAAATTACC
1 GTAAAATTACTAAAATACCCCCACTTTGTAAAATTACCGAAATACCCTCAGAGTGTAAAATTACC
**
58727807 GAAATACCCTCAGTTT
66 GAAATACCCTCAGTGG
* * * *
58727823 GTAAAATTATTAAAATACCCCGA-TTTGTAAAATTACCGTAATACCCT-TGTAGTGTAAAATTAC
1 GTAAAATTACTAAAATACCCCCACTTTGTAAAATTACCGAAATACCCTCAG-AGTGTAAAATTAC
* *
58727886 TGAAATACCC-CTGTAGG
65 CGAAATACCCTCAGT-GG
*
58727903 GTAAAATGACTA
1 GTAAAATTACTA
58727915 TTTTGCCCTT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
79 4 0.05
80 53 0.69
81 20 0.26
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (81 bp):
GTAAAATTACTAAAATACCCCCACTTTGTAAAATTACCGAAATACCCTCAGAGTGTAAAATTACC
GAAATACCCTCAGTGG
Found at i:58728717 original size:28 final size:28
Alignment explanation
Indices: 58728677--58728732 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
58728667 CTTATTCTGA
* *
58728677 TACTGTATTGGGCTTAGGCCAACACTGT
1 TACTATATTGGGCTAAGGCCAACACTGT
*
58728705 TACTATATTGGGCTAAGGCCTACACTGT
1 TACTATATTGGGCTAAGGCCAACACTGT
58728733 GCTGTTACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (28 bp):
TACTATATTGGGCTAAGGCCAACACTGT
Found at i:58730094 original size:19 final size:19
Alignment explanation
Indices: 58730070--58730109 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58730060 TGTGTCATCA
58730070 TAAATTCATAAGCATAACT
1 TAAATTCATAAGCATAACT
* **
58730089 TAAATTTATGGGCATAACT
1 TAAATTCATAAGCATAACT
58730108 TA
1 TA
58730110 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAAGCATAACT
Found at i:58741991 original size:72 final size:72
Alignment explanation
Indices: 58741874--58742011 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 72
58741864 ATATATTGCA
* *
58741874 TGACTCCTAATTAACTCCGGTTAATTTATAATGAATTTCCAAAGTCGAAATAGGGAATCCAGAAA
1 TGACTCCTAATTAACTCCGGTTAATTTATAATGAATTTACAAAGTCGAAATAGGAAATCCAGAAA
58741939 CCGTGCT
66 CCGTGCT
** * *
58741946 TGACTCCTAATTGTCTCTGGTTAATTTATAATGAATTTACAAAGTCGGAATAGGAAATCCAGAAA
1 TGACTCCTAATTAACTCCGGTTAATTTATAATGAATTTACAAAGTCGAAATAGGAAATCCAGAAA
58742011 C
66 C
58742012 AGTTCTGGCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (72 bp):
TGACTCCTAATTAACTCCGGTTAATTTATAATGAATTTACAAAGTCGAAATAGGAAATCCAGAAA
CCGTGCT
Found at i:58743049 original size:79 final size:82
Alignment explanation
Indices: 58742938--58743122 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
58742928 GCTACTCGTT
* *
58742938 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58743001 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
58743018 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
58743081 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
58743098 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58743123 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:58743122 original size:40 final size:40
Alignment explanation
Indices: 58742919--58743122 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
58742909 CGGAATTTAA
** *
58742919 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58742959 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
58742999 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
58743038 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
58743078 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
58743118 CCGGA
1 CCGGA
58743123 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:58752028 original size:19 final size:19
Alignment explanation
Indices: 58752004--58752042 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
58751994 TGGGTCATCA
58752004 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
*
58752023 TAAATTTATAGGCATAACT
1 TAAATTCATAGGCATAACT
58752042 T
1 T
58752043 GCACATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:58752813 original size:47 final size:47
Alignment explanation
Indices: 58752742--58752837 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 47
58752732 CTTGCCCCAG
* *
58752742 TCTAGGTTCGGACTCCGTCTTTCTTGATCTATAATAGCAAATTCAGC
1 TCTAGGTCCGGACTCCGTCTTTCTTGATCTATAATAGAAAATTCAGC
* * * *
58752789 TCTAGGTCCTGACTCCGT-TGTTCTTGATCTGTATTAGAAAATTTAGC
1 TCTAGGTCCGGACTCCGTCT-TTCTTGATCTATAATAGAAAATTCAGC
58752836 TC
1 TC
58752838 ATTTAATCAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 1 0.02
47 41 0.98
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (47 bp):
TCTAGGTCCGGACTCCGTCTTTCTTGATCTATAATAGAAAATTCAGC
Found at i:58758853 original size:40 final size:40
Alignment explanation
Indices: 58758776--58758953 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
58758766 AAACCAAGTA
* * *
58758776 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
58758815 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
58758855 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58758895 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
58758935 CCTTTGGGACTTAGTCCGG
1 CCTTCGGGACTTAGCCCGG
58758954 TTATCATCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 15 0.12
40 110 0.88
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58759008 original size:84 final size:84
Alignment explanation
Indices: 58758904--58759070 Score: 334
Period size: 84 Copynumber: 2.0 Consensus size: 84
58758894 GCCTTCGGGA
58758904 CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTTGGGACTTAGTCCGGTTATCATCCAAATAT
1 CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTTGGGACTTAGTCCGGTTATCATCCAAATAT
58758969 TCATGCACATATCAATAAG
66 TCATGCACATATCAATAAG
58758988 CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTTGGGACTTAGTCCGGTTATCATCCAAATAT
1 CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTTGGGACTTAGTCCGGTTATCATCCAAATAT
58759053 TCATGCACATATCAATAA
66 TCATGCACATATCAATAA
58759071 ATCATGACAC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (84 bp):
CTTAGCCCGGAATTAGTCACTAGCACAAATGCCTTTGGGACTTAGTCCGGTTATCATCCAAATAT
TCATGCACATATCAATAAG
Found at i:58768853 original size:10 final size:10
Alignment explanation
Indices: 58768825--58768855 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
58768815 AGACACCTAG
*
58768825 TTGATGACAA
1 TTGATGACGA
58768835 TTGATGACGA
1 TTGATGACGA
58768845 TTGATGACGA
1 TTGATGACGA
58768855 T
1 T
58768856 ATCTCCCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (10 bp):
TTGATGACGA
Found at i:58771214 original size:22 final size:22
Alignment explanation
Indices: 58771185--58771317 Score: 178
Period size: 22 Copynumber: 6.0 Consensus size: 22
58771175 GAGTCATGGT
*
58771185 CGGTAAGCTTCT-TCGAGCTGAA
1 CGGTAAGC-TCTATTGAGCTGAA
* *
58771207 CAGTAAGCTTTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTG-AA
*
58771230 CGGTAAGCTCTAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
*
58771252 CAGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
58771274 CGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
* *
58771296 CGGTAAGCTCCAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
58771318 ACAATAAGCT
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
21 2 0.02
22 77 0.79
23 19 0.19
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGCTGAA
Found at i:58771337 original size:67 final size:67
Alignment explanation
Indices: 58771188--58771337 Score: 207
Period size: 67 Copynumber: 2.2 Consensus size: 67
58771178 TCATGGTCGG
* *
58771188 TAAGCTTCTT-CGAGCTGAACAGTAAGCTTTATTGAGCTGAAACGGTAAGCTCTAATGAGCTGAA
1 TAAGC-TCTTACGAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCCAATGAGCTGAA
*
58771252 CAG
65 CAA
* *
58771255 TAAGCTC-TATTGAGCTGAACGGTAAGCTCTATTGAGCTG-AACGGTAAGCTCCAATGAGCTGAA
1 TAAGCTCTTA-CGAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCCAATGAGCTG-A
58771318 ACAA
64 ACAA
58771322 TAAGCTCTTACGAGCT
1 TAAGCTCTTACGAGCT
58771338 ATGGTGAGTC
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
65 1 0.01
66 23 0.32
67 47 0.64
68 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (67 bp):
TAAGCTCTTACGAGCTGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCCAATGAGCTGAAC
AA
Found at i:58775801 original size:27 final size:27
Alignment explanation
Indices: 58775779--58775838 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
58775769 AATTTGTATG
58775779 TGAA-ATGGCATATATTGGTTTTGAAT
1 TGAACATGGCATATATTGGTTTTGAAT
*
58775805 TTAACATGGCATATATTGGTTTTGAAT
1 TGAACATGGCATATATTGGTTTTGAAT
*
58775832 TTAACAT
1 TGAACAT
58775839 TTGATCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
TGAACATGGCATATATTGGTTTTGAAT
Found at i:58790875 original size:19 final size:19
Alignment explanation
Indices: 58790851--58790897 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
58790841 TATTTAGTAT
58790851 GAGCTTACTAAGCTTTTGA
1 GAGCTTACTAAGCTTTTGA
58790870 GAGCTTACTAAGCTTTTGA
1 GAGCTTACTAAGCTTTTGA
*
58790889 AAGCTTACT
1 GAGCTTACT
58790898 TTGTGTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (19 bp):
GAGCTTACTAAGCTTTTGA
Found at i:58798081 original size:41 final size:40
Alignment explanation
Indices: 58797983--58798181 Score: 157
Period size: 43 Copynumber: 4.8 Consensus size: 40
58797973 TTTTATCAAA
* * *
58797983 TCACCAGCATTTAGCCTGCTAGGTTTTAAACCTGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
* ** * *
58798023 TCACCGACATGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
* * *
58798064 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGA-ATCA-T
*** * *
58798106 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCTGA-ATCAT
* *
58798148 CTCACCGACATTATAGCCTGCTAGGCTTGAAGCC
1 -TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCC
58798182 CGATAATATT
Statistics
Matches: 130, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
40 31 0.24
41 30 0.23
42 14 0.11
43 55 0.42
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAATCAT
Found at i:58798137 original size:43 final size:43
Alignment explanation
Indices: 58798063--58798233 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
58798053 TCTGAACTCA
*
58798063 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCAT
** *
58798105 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCAT
* *
58798148 CTCACCGACATTATAGCCTGCTAGGCTTGAAGCCCGATAAT-ATT
1 TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGAT-ATCA-T
* * * *
58798192 ATTCACCAGC-TTAAAGCTTGCTAGGC-TGAGGCCCGAATATCA
1 -TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCG-ATATCA
58798234 CATTTCGATA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
42 12 0.11
43 71 0.65
44 20 0.18
45 6 0.06
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCTTGAAGCCCGATATCAT
Found at i:58799852 original size:22 final size:22
Alignment explanation
Indices: 58799820--58799864 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
58799810 CAATGGGGAA
58799820 AAGAAAGATGAACATACATTGT
1 AAGAAAGATGAACATACATTGT
*
58799842 AAGAAATATGAACATACATTGT
1 AAGAAAGATGAACATACATTGT
58799864 A
1 A
58799865 TTTATCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.16, T:0.24
Consensus pattern (22 bp):
AAGAAAGATGAACATACATTGT
Found at i:58802834 original size:10 final size:10
Alignment explanation
Indices: 58802819--58802845 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
58802809 TGTAGATTCA
58802819 AAAAAAATCG
1 AAAAAAATCG
58802829 AAAAAAATCG
1 AAAAAAATCG
58802839 AAAAAAA
1 AAAAAAA
58802846 ATATTTTGAA
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:0.07, T:0.07
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:58805723 original size:18 final size:18
Alignment explanation
Indices: 58805700--58805735 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58805690 ATTTTCAAAA
58805700 ATCGACCTTAAGAGCGGT
1 ATCGACCTTAAGAGCGGT
58805718 ATCGACCTTAAGAGCGGT
1 ATCGACCTTAAGAGCGGT
58805736 TATCACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (18 bp):
ATCGACCTTAAGAGCGGT
Found at i:58808212 original size:12 final size:12
Alignment explanation
Indices: 58808195--58808219 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58808185 GGAATTTTAG
58808195 ACCATTTAAATA
1 ACCATTTAAATA
58808207 ACCATTTAAATA
1 ACCATTTAAATA
58808219 A
1 A
58808220 GTTTCATTAC
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ACCATTTAAATA
Found at i:58813567 original size:14 final size:14
Alignment explanation
Indices: 58813536--58813578 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
58813526 TAGTTGAGTT
**
58813536 AAAGGGTAGGAATG
1 AAAGGGTAGGAACA
58813550 AAAGGGTAGGAACA
1 AAAGGGTAGGAACA
* *
58813564 AAAGGATATGAACA
1 AAAGGGTAGGAACA
58813578 A
1 A
58813579 CTTGGTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.33, T:0.12
Consensus pattern (14 bp):
AAAGGGTAGGAACA
Found at i:58820100 original size:12 final size:12
Alignment explanation
Indices: 58820083--58820123 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
58820073 ATAAATCACT
58820083 TTTTTTTTCGAA
1 TTTTTTTTCGAA
58820095 TTTTTTTTTCG-A
1 -TTTTTTTTCGAA
58820107 -TTTTTTT-GAA
1 TTTTTTTTCGAA
58820117 TTTTTTT
1 TTTTTTT
58820124 AAACTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 6 0.23
12 1 0.04
13 10 0.38
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:58820123 original size:13 final size:12
Alignment explanation
Indices: 58820082--58820113 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
58820072 CATAAATCAC
58820082 TTTTTTTTTCGAA
1 TTTTTTTTTCG-A
58820095 TTTTTTTTTCGA
1 TTTTTTTTTCGA
58820107 TTTTTTT
1 TTTTTTT
58820114 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTCGA
Found at i:58821462 original size:47 final size:47
Alignment explanation
Indices: 58821393--58821485 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
58821383 CACTTAAGCC
58821393 ATTCATGCATTCTATCATCCCATGCATTTGATCCATTCATGGACCAA
1 ATTCATGCATTCTATCATCCCATGCATTTGATCCATTCATGGACCAA
58821440 ATTCATGCATTCTATCATCCCATGCATTTGATCCATTCATGGACCA
1 ATTCATGCATTCTATCATCCCATGCATTTGATCCATTCATGGACCA
58821486 GCCTTTAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
ATTCATGCATTCTATCATCCCATGCATTTGATCCATTCATGGACCAA
Found at i:58821911 original size:30 final size:30
Alignment explanation
Indices: 58821877--58821973 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
58821867 TAAACTAAAA
58821877 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
58821907 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
58821937 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
58821967 TGAGCTA
1 TGAGCTA
58821974 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:58824770 original size:30 final size:30
Alignment explanation
Indices: 58824734--58824831 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
58824724 AGCTCACTCC
58824734 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * *
58824764 TAGCTCAGCTTCAGCTTA-GAAGTTTAATCT
1 TAGCTCATATTCAGCTCACG-AGCTAAACCT
* * *
58824794 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
58824824 TAGCTCAT
1 TAGCTCAT
58824832 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
29 1 0.02
30 48 0.96
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:58827431 original size:21 final size:20
Alignment explanation
Indices: 58827397--58827466 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
58827387 ACATTCTTGT
58827397 AAAGAGAAAATAAAGAAAAGA
1 AAAGAGAAAATAAA-AAAAGA
*
58827418 AAAGA-AAAAGTAAAAGAAGA
1 AAAGAGAAAA-TAAAAAAAGA
*
58827438 AAA-ATAAAATGAAATAAAAAGA
1 AAAGAGAAAAT--AA-AAAAAGA
58827460 AAAGAGA
1 AAAGAGA
58827467 GGCAAGAGGC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.05
20 16 0.40
21 11 0.28
22 9 0.22
23 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAGAGAAAATAAAAAAAGA
Found at i:58827445 original size:14 final size:15
Alignment explanation
Indices: 58827419--58827464 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
58827409 AAGAAAAGAA
58827419 AAGAAAAAGTAAAAG
1 AAGAAAAAGTAAAAG
58827434 AAGAAAAA-TAAAATG
1 AAGAAAAAGTAAAA-G
*
58827449 AAATAAAAAG-AAAAG
1 -AAGAAAAAGTAAAAG
58827464 A
1 A
58827465 GAGGCAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 6 0.22
15 10 0.37
16 11 0.41
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (15 bp):
AAGAAAAAGTAAAAG
Found at i:58827541 original size:12 final size:12
Alignment explanation
Indices: 58827533--58827557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58827523 TTTGAAAAGC
58827533 AAAAAGAAAATG
1 AAAAAGAAAATG
58827545 AAAAAGAAAATG
1 AAAAAGAAAATG
58827557 A
1 A
58827558 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:58827554 original size:18 final size:18
Alignment explanation
Indices: 58827527--58827582 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
58827517 AAGGCCTTTG
58827527 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
58827546 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
58827564 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
58827581 AA
1 AA
58827583 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:58827567 original size:30 final size:31
Alignment explanation
Indices: 58827533--58827614 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
58827523 TTTGAAAAGC
*
58827533 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
58827563 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
58827593 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
58827615 TGACACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:58834644 original size:30 final size:30
Alignment explanation
Indices: 58834610--58834706 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
58834600 AGCTCACTCC
*
58834610 TAGCTCATA-TTCAGCTTACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTTACGAGCTTAACCT
* * *
58834640 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTTACGAGCTTAACCT
* * * *
58834670 CAGCTCAACTTTAGCTCACGAGCTTAAGCT
1 TAGCTCAACTTCAGCTTACGAGCTTAACCT
58834700 TAGCTCA
1 TAGCTCA
58834707 TTTTAGTTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTTACGAGCTTAACCT
Found at i:58837317 original size:37 final size:37
Alignment explanation
Indices: 58837266--58837336 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
58837256 CATTCTTGTA
58837266 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
58837303 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
58837337 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:58837336 original size:6 final size:6
Alignment explanation
Indices: 58837276--58837325 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
58837266 AAGAGAAAAC
*
58837276 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
58837325 A
1 A
58837326 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:58837424 original size:12 final size:12
Alignment explanation
Indices: 58837407--58837431 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58837397 TTTGAGAAGC
58837407 AAAAAGAAAATG
1 AAAAAGAAAATG
58837419 AAAAAGAAAATG
1 AAAAAGAAAATG
58837431 A
1 A
58837432 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:58837433 original size:30 final size:30
Alignment explanation
Indices: 58837399--58837488 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
58837389 AAAAAGCCTT
58837399 TGAGAAGCAAAAAGAAAATGAAAAAGAAA-A
1 TGAGAAG-AAAAAGAAAATGAAAAAGAAATA
* * * *
58837429 TGAGATTGAAAAAGAGAACG-AAAAGAAATT
1 TGAGA-AGAAAAAGAAAATGAAAAAGAAATA
* *
58837459 TGAGAGTGAAAAAGAAGATGAAAAAGAAAT
1 TGAGA-AGAAAAAGAAAATGAAAAAGAAAT
58837489 TGAAACAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 8 0.16
30 31 0.63
31 10 0.20
ACGTcount: A:0.62, C:0.02, G:0.23, T:0.12
Consensus pattern (30 bp):
TGAGAAGAAAAAGAAAATGAAAAAGAAATA
Found at i:58839612 original size:30 final size:30
Alignment explanation
Indices: 58839578--58839674 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
58839568 AGCTCACTCC
58839578 TAGCTCATA-TTCAGCTTACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTTACGAGCTAAACCT
* * * *
58839608 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTTACGAGCTAAACCT
* * * *
58839638 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTTACGAGCTAAACCT
58839668 TAGCTCA
1 TAGCTCA
58839675 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTTACGAGCTAAACCT
Found at i:58840159 original size:63 final size:63
Alignment explanation
Indices: 58840085--58840903 Score: 1638
Period size: 63 Copynumber: 13.0 Consensus size: 63
58840075 AATGGATCAA
58840085 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840148 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840211 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840274 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840337 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840400 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840463 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840526 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840589 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840652 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840715 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840778 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840841 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
1 ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
58840904 TCCAAGGCAC
Statistics
Matches: 756, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 756 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (63 bp):
ATGCATGGGATGATAGAATGCATGAATGGCTTAAGTGCATGTATGGTGGCTGTCTCTTAACTT
Found at i:58842192 original size:46 final size:44
Alignment explanation
Indices: 58842112--58842240 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 44
58842102 GCTGGTATTA
* * *
58842112 TATTCGAGCCTTT-GAGCCTAACAGACTATTATGCCGGTGAGACAT
1 TATTCGAGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-AT
* * *
58842157 TATTCGGGCCTTTCGAGCCTAGTAGGCTATAATGCCAGTGAAAT
1 TATTCGAGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
* *
58842201 GATATCGAGCC--TCGAGCCTAGCAGGC-AAAATGCCGGTGAA
1 TAT-TCGAGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
58842241 TGAATAAAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 12 0.17
43 14 0.20
44 4 0.06
45 19 0.27
46 22 0.31
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (44 bp):
TATTCGAGCCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
Found at i:58844981 original size:145 final size:145
Alignment explanation
Indices: 58844693--58844988 Score: 492
Period size: 145 Copynumber: 2.0 Consensus size: 145
58844683 GTCATTAAGC
58844693 ATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTAATGACGCTGAATGGAATGATAAAT
1 ATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTAATGACGCTGAATGGAATGATAAAT
* *
58844758 ATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAATGAAAAGAAAAGAGGTGAGATGT
66 ATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAATGAAAAGAAAAGAGCTAAGATGT
**
58844823 ATTGAGTTGTTGATT
131 AGCGAGTTGTTGATT
58844838 ATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTAATGACGCTGAATGGAATGATAAAT
1 ATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTAATGACGCTGAATGGAATGATAAAT
58844903 ATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAATGAAAAGAAAATGTAGCACTAAG
66 ATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAATGAAAAGAAAA-G-AG--CTAAG
58844968 -TGT-GCGAG-T-TTGATT
127 ATGTAGCGAGTTGTTGATT
58844983 ATATAG
1 ATATAG
58844989 CACTAAGTGT
Statistics
Matches: 143, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
145 130 0.91
146 2 0.01
147 5 0.03
148 3 0.02
149 3 0.02
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (145 bp):
ATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTAATGACGCTGAATGGAATGATAAAT
ATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAATGAAAAGAAAAGAGCTAAGATGT
AGCGAGTTGTTGATT
Found at i:58845015 original size:27 final size:28
Alignment explanation
Indices: 58844958--58845028 Score: 126
Period size: 27 Copynumber: 2.6 Consensus size: 28
58844948 AAAGAAAATG
58844958 TAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
58844986 TAGCACTAAGTGTGCGAG-TTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
*
58845013 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
58845029 GACTTAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGCACTAAGTGTGCGAGTTTGATTATA
Found at i:58845039 original size:27 final size:27
Alignment explanation
Indices: 58844958--58845042 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
58844948 AAAGAAAATG
* *
58844958 TAGCACTAAGTGTGCGAGTTTGATTATA
1 TAGCACTAAGTGTGCGA-CTTGAATATA
* *
58844986 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGACTTGAATATA
*
58845013 TAGCACTGAGTGTGCGGACTT-AATATA
1 TAGCACTAAGTGTGC-GACTTGAATATA
58845040 TAG
1 TAG
58845043 TTTTGAATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 31 0.60
28 21 0.40
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGACTTGAATATA
Found at i:58846791 original size:28 final size:28
Alignment explanation
Indices: 58846731--58846791 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
58846721 GTTGTGTGAC
* * *
58846731 TTTGAAAATTCACCAAAAAATTGTGTAA
1 TTTGAAAATTCACAAAAAAATTATGAAA
* **
58846759 GTTGAAAATTTTCAAAAAAATTATGAAA
1 TTTGAAAATTCACAAAAAAATTATGAAA
58846787 TTTGA
1 TTTGA
58846792 TGAGTCTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (28 bp):
TTTGAAAATTCACAAAAAAATTATGAAA
Found at i:58847049 original size:49 final size:48
Alignment explanation
Indices: 58846988--58847083 Score: 156
Period size: 49 Copynumber: 2.0 Consensus size: 48
58846978 TACTTTTAGG
* * *
58846988 AGGAATGTACGGGAACATCATCCGAGTCCCGAAATATGAGATAAATAAC
1 AGGAATGGACGGGAACATCATACGA-TCCCAAAATATGAGATAAATAAC
58847037 AGGAATGGACGGGAACATCATACGATCCCAAAATATGAGATAAATAA
1 AGGAATGGACGGGAACATCATACGATCCCAAAATATGAGATAAATAA
58847084 TTTTTAGTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 21 0.48
49 23 0.52
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.18
Consensus pattern (48 bp):
AGGAATGGACGGGAACATCATACGATCCCAAAATATGAGATAAATAAC
Found at i:58852920 original size:37 final size:37
Alignment explanation
Indices: 58852870--58852948 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58852860 TTATTACGAA
* * * *
58852870 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
58852907 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
58852944 GTCTT
1 GTCTT
58852949 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:58853141 original size:49 final size:49
Alignment explanation
Indices: 58853069--58853508 Score: 675
Period size: 49 Copynumber: 9.1 Consensus size: 49
58853059 CTTCGGGACT
* * * * *
58853069 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
58853116 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
58853165 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
58853212 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
58853261 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
58853310 TATCACATATATATACACTTTCACATTCATCACACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCAT--CACATCGGCCATTAGGCCC
*
58853361 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCG
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
58853408 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGG--CCATTAGGCCC
*
58853457 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
58853504 TATCA
1 TATCA
58853509 TCATTTCATA
Statistics
Matches: 372, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
47 122 0.33
48 1 0.00
49 224 0.60
51 25 0.07
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.30
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:58853231 original size:96 final size:96
Alignment explanation
Indices: 58853067--58853508 Score: 708
Period size: 96 Copynumber: 4.6 Consensus size: 96
58853057 CCCTTCGGGA
* * * * * * *
58853067 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
58853132 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
58853163 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
58853228 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
58853259 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
58853324 ACACTTTCACATTCATCACACATCGGCCATTAGGC
64 ACACTTTCACATTCAT--CACATCGGCCATTAGGC
* *
58853359 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
58853422 ACTTTCACATTCATCACATCGGCCCCATTAGGC
66 ACTTTCACATTCATCACATCGG--CCATTAGGC
*
58853455 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA
58853509 TCATTTCATA
Statistics
Matches: 328, Mismatches: 12, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
94 8 0.02
96 178 0.54
98 117 0.36
100 25 0.08
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58863238 original size:20 final size:18
Alignment explanation
Indices: 58863213--58863249 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
58863203 ACCTAACACG
58863213 AATTAAATTTAAGCCATATT
1 AATTAAA-TTAAG-CATATT
58863233 AATTAAATTAAGCATAT
1 AATTAAATTAAGCATAT
58863250 CAACAGAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 5 0.29
20 7 0.41
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAGCATATT
Found at i:58863419 original size:20 final size:20
Alignment explanation
Indices: 58863394--58863459 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
58863384 TTGAATCGAG
58863394 GCTTCTACGAGCACTTGAAT
1 GCTTCTACGAGCACTTGAAT
* * *
58863414 GCTTCTGCAAGAACTTGAAT
1 GCTTCTACGAGCACTTGAAT
* *
58863434 GCTTCTACGAGCACTTTAGT
1 GCTTCTACGAGCACTTGAAT
58863454 GCTTCT
1 GCTTCT
58863460 TCCAATGGCG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (20 bp):
GCTTCTACGAGCACTTGAAT
Found at i:58867054 original size:47 final size:47
Alignment explanation
Indices: 58866976--58868084 Score: 2040
Period size: 47 Copynumber: 23.6 Consensus size: 47
58866966 CCCTTCGGGA
* * * * * *
58866976 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58867022 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58867070 CTCATCACATATATACACTTTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867117 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867164 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867211 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867258 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867305 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867352 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867399 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867446 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867493 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867540 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867587 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867634 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867681 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867728 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
58867775 CTCATCACATATATACACTTTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58867822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867869 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867918 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58867965 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58868012 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58868059 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
58868085 CACAATTATC
Statistics
Matches: 1035, Mismatches: 24, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
46 2 0.00
47 985 0.95
48 2 0.00
49 46 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58871606 original size:39 final size:39
Alignment explanation
Indices: 58871563--58871834 Score: 418
Period size: 39 Copynumber: 7.0 Consensus size: 39
58871553 ATTATATTAT
* * *
58871563 CAGCACAAAGCCTGCGGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
58871602 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
58871641 CAACACGAAGCCTGCGGGACTTTGGCTCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
58871680 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
58871719 CAGCATGAAGCCTACGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
58871758 CAGCACGAAGCCGGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
58871797 CAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
58871835 TCAGTGTCTT
Statistics
Matches: 213, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 213 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:58879411 original size:27 final size:27
Alignment explanation
Indices: 58879369--58879449 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
58879359 AATCTCATAT
* * *
58879369 CTGTAGGCTAGTATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
58879396 CTGTAGGGTAGAATTACTGAAATTCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * *
58879423 CTATAGGGTAAAATTACTGAAGTACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
58879450 TTGGTTTACA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:58879474 original size:26 final size:27
Alignment explanation
Indices: 58879432--58879490 Score: 111
Period size: 26 Copynumber: 2.2 Consensus size: 27
58879422 CCTATAGGGT
58879432 AAAATTACTGAAGTACCCTTGGTTTAC
1 AAAATTACTGAAGTACCCTTGGTTTAC
58879459 AAAATTACTGAA-TACCCTTGGTTTAC
1 AAAATTACTGAAGTACCCTTGGTTTAC
58879485 AAAATT
1 AAAATT
58879491 TCCAGAATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 20 0.62
27 12 0.38
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAATTACTGAAGTACCCTTGGTTTAC
Found at i:58879543 original size:27 final size:27
Alignment explanation
Indices: 58879512--58879644 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
58879502 CTCAATTAGA
*
58879512 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * * *
58879539 GAAATTATTGAAATACCCTTGATTTGT
1 AAAATTACTAAAATACCCCTGATTTGT
* * *
58879566 AAAATTACCAAAATACCCCTAATTTGG
1 AAAATTACTAAAATACCCCTGATTTGT
* ** *
58879593 CAAATTACTAAAATACCGTTGATTTGA
1 AAAATTACTAAAATACCCCTGATTTGT
58879620 AAAATTA-TAGAAATACCCCTGATTT
1 AAAATTACTA-AAATACCCCTGATTT
58879645 ACAAATTTAT
Statistics
Matches: 84, Mismatches: 21, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
26 2 0.02
27 82 0.98
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGATTTGT
Found at i:58879554 original size:54 final size:54
Alignment explanation
Indices: 58879496--58879691 Score: 204
Period size: 54 Copynumber: 3.6 Consensus size: 54
58879486 AAATTTCCAG
** * * *
58879496 AATACCCTCAATTAGAAAAATTACCAAAATACCCCTGATTTGTG-AAATTATTGA
1 AATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTG-GCAAATTACTAA
* *
58879550 AATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGGCAAATTACTAA
1 AATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGGCAAATTACTAA
* * *
58879604 AATACCGTTGATTTGAAAAATTA-TAGAAATACCCCTGATTT-ACAAATTTA-TAGA
1 AATACCCTTGATTTGAAAAATTACCA-AAATACCCCTGATTTGGCAAA-TTACTA-A
*
58879658 AATACCCTTGACTTTCAAAAATTA-CAGAAATACC
1 AATACCCTTGA-TTTGAAAAATTACCA-AAATACC
58879692 ATTGTTTTGC
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
53 8 0.07
54 94 0.77
55 20 0.16
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
AATACCCTTGATTTGAAAAATTACCAAAATACCCCTGATTTGGCAAATTACTAA
Found at i:58879581 original size:81 final size:81
Alignment explanation
Indices: 58879459--58879649 Score: 215
Period size: 81 Copynumber: 2.4 Consensus size: 81
58879449 CTTGGTTTAC
* * * *
58879459 AAAATTACTG-AATACCCTTGGTTTACAAAATTTCCAGAATA-CCCTCAATTAGAAAAATTACCA
1 AAAATTATTGAAATACCCTTGATTTACAAAATTACCAAAATACCCCT-AATTAGAAAAATTACCA
*
58879522 AAATACCCCTGATTTGT
65 AAATACCCCTGATTTGA
* ** * ** *
58879539 GAAATTATTGAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTAATTTGGCAAATTACTAA
1 AAAATTATTGAAATACCCTTGATTTACAAAATTACCAAAATACCCCTAATTAGAAAAATTACCAA
**
58879604 AATACCGTTGATTTGA
66 AATACCCCTGATTTGA
* *
58879620 AAAATTATAGAAATACCCCTGATTTACAAA
1 AAAATTATTGAAATACCCTTGATTTACAAA
58879650 TTTATAGAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
80 8 0.09
81 78 0.87
82 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTATTGAAATACCCTTGATTTACAAAATTACCAAAATACCCCTAATTAGAAAAATTACCAA
AATACCCCTGATTTGA
Found at i:58879654 original size:27 final size:28
Alignment explanation
Indices: 58879522--58879708 Score: 131
Period size: 27 Copynumber: 6.9 Consensus size: 28
58879512 AAAATTACCA
** *
58879522 AAATACCCCTGATTTG-TGAAATTATTG
1 AAATACCCCTGATTTGACAAAATTATAG
* * *
58879549 AAATACCCTTGATTTG-TAAAATTACCA-
1 AAATACCCCTGATTTGACAAAATTA-TAG
* *
58879576 AAATACCCCTAATTTGGC-AAATTACTA-
1 AAATACCCCTGATTTGACAAAATTA-TAG
**
58879603 AAATACCGTTGATTTGA-AAAATTATAG
1 AAATACCCCTGATTTGACAAAATTATAG
*
58879630 AAATACCCCTGATTT-ACAAATTTATAG
1 AAATACCCCTGATTTGACAAAATTATAG
* * *
58879657 AAATACCCTTGACTTTCA-AAAATTACAG
1 AAATACCCCTGA-TTTGACAAAATTATAG
** *
58879685 AAATACCATTGTTTTG-CAAAATTA
1 AAATACCCCTGATTTGACAAAATTA
58879709 CCGAAATATC
Statistics
Matches: 131, Mismatches: 21, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.02
27 106 0.81
28 21 0.16
29 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (28 bp):
AAATACCCCTGATTTGACAAAATTATAG
Found at i:58879715 original size:55 final size:54
Alignment explanation
Indices: 58879432--58879721 Score: 164
Period size: 54 Copynumber: 5.4 Consensus size: 54
58879422 CCTATAGGGT
* * * * *
58879432 AAAATTACTGAAGTACCCTTGGTTT-ACAAAATTACTG-AATACC-CTTGGTTTAC
1 AAAATTACAGAAATACCCTTGATTTCA-AAAATTACAGAAATACCAC-TGATTTAC
* ** ** * **
58879485 AAAATTTCCAG-AATACCCTCAATTAGAAAAATTACCA-AAATACCCCTGATTTGT
1 AAAA-TTACAGAAATACCCTTGATTTCAAAAATTA-CAGAAATACCACTGATTTAC
* ** ** * * *
58879539 GAAATTATTGAAATACCCTTGATTTGTAAAATTACCA-AAATACCCCTAATTTGGC
1 AAAATTACAGAAATACCCTTGATTTCAAAAATTA-CAGAAATACCACTGATTT-AC
* * * *
58879594 -AAATTACTA-AAATACCGTTGATTTGAAAAATTATAGAAATACCCCTGATTTAC
1 AAAATTAC-AGAAATACCCTTGATTTCAAAAATTACAGAAATACCACTGATTTAC
* * * * *
58879647 AAATTTATAGAAATACCCTTGACTTTCAAAAATTACAGAAATACCATTGTTTTGC
1 AAAATTACAGAAATACCCTTGA-TTTCAAAAATTACAGAAATACCACTGATTTAC
* *
58879702 AAAATTACCGAAATATCCTT
1 AAAATTACAGAAATACCCTT
58879722 AGTTTGTAGA
Statistics
Matches: 184, Mismatches: 41, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
53 26 0.14
54 114 0.62
55 44 0.24
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (54 bp):
AAAATTACAGAAATACCCTTGATTTCAAAAATTACAGAAATACCACTGATTTAC
Found at i:58880032 original size:41 final size:41
Alignment explanation
Indices: 58879987--58880109 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
58879977 GAAGGAAGAA
* *
58879987 ATTGAGGATCGCATGGTTTCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
58880028 ATTGAGAATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
58880069 ATTAAGGATCGCAGGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
58880110 GTGGCTTTTA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:58880447 original size:25 final size:25
Alignment explanation
Indices: 58880256--58880446 Score: 238
Period size: 25 Copynumber: 7.6 Consensus size: 25
58880246 TATTTTAATT
*
58880256 ATGGCTTTGTGCCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
58880281 AAGGCTTTGTACCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * * *
58880306 AAGGCTTTGTGCTGGTATGTTATTT
1 ATGGCTTTGTGCCGATATGTTATTG
*
58880331 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
58880356 ATGGCTATGTCCCGATCTGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
*
58880381 ATGGCTTTGTGCCGATATGATATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
58880406 ATGGCTATGTGTCGATCTGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
58880431 ATGGCTTTGTGCCGAT
1 ATGGCTTTGTGCCGAT
58880447 CGTTTTATCG
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 140 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGTTATTG
Found at i:58887518 original size:27 final size:26
Alignment explanation
Indices: 58887470--58887529 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58887460 GCGAGGCTGC
*
58887470 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
58887497 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
58887523 CAGATAT
1 CAGATAT
58887530 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58887622 original size:27 final size:26
Alignment explanation
Indices: 58887574--58887633 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58887564 ACGAGGCTGC
*
58887574 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
58887601 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
58887627 CAGATAT
1 CAGATAT
58887634 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58887634 original size:104 final size:104
Alignment explanation
Indices: 58887454--58887729 Score: 518
Period size: 104 Copynumber: 2.7 Consensus size: 104
58887444 CACCACAAAA
*
58887454 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
58887519 AGAACAGATATATATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATATATATGTGGCGAAGCCACCAG
58887558 ATTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
58887623 AGAACAGATATATATATATATATGTGGCGAAGCCACCAG
66 AGAACAGATATATATATATATATGTGGCGAAGCCACCAG
*
58887662 ATTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 ATTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCCAC
58887726 CAGA
65 CAGA
58887730 TTGCAGTGAG
Statistics
Matches: 169, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
103 8 0.05
104 161 0.95
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (104 bp):
ATTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
AGAACAGATATATATATATATATGTGGCGAAGCCACCAG
Found at i:58887726 original size:27 final size:26
Alignment explanation
Indices: 58887678--58887729 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58887668 ACGAGGCTGC
*
58887678 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
58887704 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
58887730 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:58894861 original size:33 final size:32
Alignment explanation
Indices: 58894802--58894865 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
58894792 ACGAAGTCAC
* * *
58894802 CAGATATAGATGTTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCAAAGCCACCAGAA
*
58894834 CAGATATATATATATGTGGCAAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCAAAGCCACCAGA
58894866 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCAAAGCCACCAGAA
Found at i:58899232 original size:20 final size:20
Alignment explanation
Indices: 58899189--58899234 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
58899179 ACTGTTCTGT
*
58899189 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTATTCA
* *
58899208 AATGGGCCCAACTGTGTTCA
1 TATGGGCCCAACTGTATTCA
58899228 TATGGGC
1 TATGGGC
58899235 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTCA
Found at i:58907553 original size:25 final size:27
Alignment explanation
Indices: 58907516--58907568 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
58907506 TCAAACATGC
58907516 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
58907542 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
58907568 A
1 A
58907569 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:58909085 original size:26 final size:26
Alignment explanation
Indices: 58909054--58909135 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
58909044 TGAAATTCCC
58909054 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
58909080 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
58909106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
58909132 ATCA
1 ATCA
58909136 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:58915702 original size:12 final size:12
Alignment explanation
Indices: 58915685--58915709 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58915675 GCCGGCCAGA
58915685 AGCCCATGTGCC
1 AGCCCATGTGCC
58915697 AGCCCATGTGCC
1 AGCCCATGTGCC
58915709 A
1 A
58915710 CACACGGCCA
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (12 bp):
AGCCCATGTGCC
Found at i:58916404 original size:43 final size:42
Alignment explanation
Indices: 58916357--58916506 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
58916347 TATCCTAGAT
* * *
58916357 ATGGTCTTGCATGTTATCACATATTGATGCCAATATCCCAAAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAAT-TCCCAAAC
* * * *
58916400 ATGGTCTTACATGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAAT-TCCCAAAC
* * * * *
58916443 AGGGTCTTACATGTAATCACA-ATACAATGCCAATGCCCCAAT
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATTCCCAAAC
58916485 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
58916507 CTCGGTAATC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
42 25 0.29
43 62 0.71
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATTCCCAAAC
Found at i:58921817 original size:13 final size:13
Alignment explanation
Indices: 58921795--58921829 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
58921785 CAACACACAC
58921795 GCCCGTGTGGCTA
1 GCCCGTGTGGCTA
*
58921808 GCCTGTGTGGCTA
1 GCCCGTGTGGCTA
58921821 GCCCGTGTG
1 GCCCGTGTG
58921830 CCCTAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.29, G:0.40, T:0.26
Consensus pattern (13 bp):
GCCCGTGTGGCTA
Found at i:58922861 original size:40 final size:40
Alignment explanation
Indices: 58922806--58922983 Score: 227
Period size: 40 Copynumber: 4.5 Consensus size: 40
58922796 CGGATGATAA
**
58922806 CCGGGCTAAGTCCCGAAGGCATTTGTGTTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-T
* * *
58922846 CCGGGCAAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
58922886 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
58922926 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
*
58922966 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58922984 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.13
40 106 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:58925228 original size:44 final size:44
Alignment explanation
Indices: 58925165--58925908 Score: 398
Period size: 44 Copynumber: 16.8 Consensus size: 44
58925155 TATCATGGTG
* * * * *
58925165 AATCTTATCCCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
58925209 AATCTTATCTCTCTGAAGTTGCAGTCGAGCAAATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACA
** * ** * *
58925254 AATCTTATCTCTTTGAAGTTGTAGTACAGTAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
58925298 AACCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTACA
* * * * * * *
58925342 AGTCTTATCTCCCTGAAGTTACTGTGGAGTAGATTGAAGATAGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
** *
58925387 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGA-T--A--T--A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
58925424 AACCTTATCCCCCTAAAGTTACAGTGGAGCA-AGTTGAAG-TCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCT-ACA
* * * * * * * *
58925468 AGTCTTATCTCTCTGAAGTTGTAATGTAGTAGACTGAAA-ATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTA-CA
** * *
58925513 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * *
58925557 AATCTTATCTCCCTAAAGTTACAGTGGAGTAGATTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
58925601 AATCTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAA-ATAGCA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-CA
* *** * ***
58925647 AATCCTATAC-CCCTGAAGTTGCAGTGGAATGGATTGAATTTGTCGTGGTG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGATT-AA--AG-C-T-ACA
* * * * *
58925697 AATCATATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
58925741 AATTTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* * ** * * * *
58925786 AATCTTATCTCCTTAAAGTTATAATGGAGCAGAATGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
58925830 AATCTTATTTCTCTGAAGTTTCAGTAGAGCATATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * *
58925874 AATCTTATTTCCTTAAAGTTGTAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
58925909 GAAATTACAA
Statistics
Matches: 529, Mismatches: 143, Indels: 56
0.73 0.20 0.08
Matches are distributed among these distances:
36 1 0.00
37 25 0.05
38 1 0.00
40 2 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 266 0.50
45 190 0.36
46 9 0.02
47 1 0.00
49 3 0.01
50 28 0.05
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:58925291 original size:89 final size:88
Alignment explanation
Indices: 58925165--58925908 Score: 328
Period size: 89 Copynumber: 8.4 Consensus size: 88
58925155 TATCATGGTG
* * * * *
58925165 AATCTTATCCCCCTAAAGTTGTAGTAGAGCAGATTAAAGCCACAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
*
58925230 CAGTCGAGCAAATTGAAGATAACA
66 CAGTAGAGCAAATTGAAG-TAACA
** * * * *
58925254 AATCTTATCTCTTTGAAGTTGTAGTACAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* * * * *
58925319 TAGTGGAGCAAGTTGAAGTTATA
66 CAGTAGAGCAAATTGAAGTAACA
* * * * * *
58925342 AGTCTTATCTCCCTGAAGTTACT-GTGGAGTAGATTGAAGATAGAAAATCTTATCTTTCTGAAGT
1 AATCTTATCTCCCTGAAGTT-GTAGTAGAGTAGATTAAAGCTA-AAAATCTTATCTCTCTGAAGT
*
58925406 TGCAGTAGAGC--A--G-A-T-ATA
64 TGCAGTAGAGCAAATTGAAGTAACA
* * * ** * * * * *
58925424 AACCTTATCCCCCTAAAGTTACAGTGGAGCA-AGTTGAAG-TCACAAGTCTTATCTCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGA-TTAAAGCT-AAAAATCTTATCTCTCTGAAGT
* * * * * * *
58925487 TGTAAT-GTAGTAGACTGAAAATAGCA
64 TGCAGTAG-AGCAAATTG-AAGTAACA
** * * * * * *
58925513 AATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* * * * *
58925578 CAGTGGAGTAGATTGAAGTTATA
66 CAGTAGAGCAAATTGAAGTAACA
** * * * * * * *
58925601 AATCTTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAA-ATAGCAAATCCTATAC-CCCTGAA
1 AATC-TTATCTCCCTGAAGTTGTAGTAGAGTAGATT-AAAGCTA-AAAATCTTAT-CTCTCTGAA
* * ** ****
58925664 GTTGCAGTGGAATGGATTGAATTTGTCGTGGTG
62 GTTGCAGTAG-A-GCA---AA-TTGAAGTAACA
* * * * * * * *
58925697 AATCATATCTCCCTGAAGTTGCAGTAGAGAAAATTAAAGCCACAAATTTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* *
58925762 CAGTAGAGCAGATTGAAGATAGCA
66 CAGTAGAGCAAATTGAAG-TAACA
* * * * * * * * * * * *
58925786 AATCTTATCTCCTTAAAGTTATAATGGAGCAGAATGAAGTTACAAATCTTATTTCTCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
* *
58925851 CAGTAGAGCATATTAAAGCT-ACA
66 CAGTAGAGCAAATTGAAG-TAACA
* * * *
58925874 AATCTTATTTCCTTAAAGTTGTAGTGGAGTAGATT
1 AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATT
58925909 GAAATTACAA
Statistics
Matches: 499, Mismatches: 126, Indels: 61
0.73 0.18 0.09
Matches are distributed among these distances:
80 1 0.00
81 26 0.05
82 33 0.07
83 2 0.00
84 1 0.00
85 2 0.00
87 1 0.00
88 80 0.16
89 252 0.51
90 29 0.06
91 2 0.00
92 4 0.01
93 2 0.00
94 27 0.05
95 27 0.05
96 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCTAAAAATCTTATCTCTCTGAAGTTG
CAGTAGAGCAAATTGAAGTAACA
Found at i:58925565 original size:215 final size:215
Alignment explanation
Indices: 58925224--58925635 Score: 499
Period size: 215 Copynumber: 1.9 Consensus size: 215
58925214 TATCTCTCTG
* * * *
58925224 AAGTTGCAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTTTGAAGTTGTAGTACAGTAGATT
1 AAGTTACAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAATACAGTAGATG
* * * * * * *
58925289 AAAGCTATAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAAGTTATAAGTCTTATCTCC
66 AAAGATACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTAAAGCTATAAATCTTATCTCC
* * ** * *
58925354 CTGAAGTTACTGTGGAGTAGATTGAAGATAGAAAATC-TTATCTTTCTGAAGTTGCAGTAGAGCA
131 CTAAAGTTACAGTGGAGTAGATTGAAGATA-AAAATCTTTATCTCCCTGAAGTTACAATAGAGCA
58925418 GATATAAACCTTATCCCCCTA
195 GATATAAACCTTATCCCCCTA
* * * * **
58925439 AAGTTACAGTGGAGCAAGTTGAAG-TCACAAGTCTTATCTCTCTGAAGTTGTAATGTAGTAGACT
1 AAGTTACAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAATACAGTAGA-T
* **
58925503 GAAA-ATAGCAAATCTTATCTTTCTGAAGTTGCAGTAGAGC-AGATTAAAGCTATAAATCTTATC
65 GAAAGATA-CAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAG-TTAAAGCTATAAATCTTATC
* * *
58925566 TCCCTAAAGTTACAGTGGAGTAGATTGAAGTTATAAATCTTTATCTCCCTGAAGTTACAATGGAG
128 TCCCTAAAGTTACAGTGGAGTAGATTGAAGATAAAAATCTTTATCTCCCTGAAGTTACAATAGAG
58925631 CAGAT
193 CAGAT
58925636 TGAAAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
214 41 0.25
215 123 0.75
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (215 bp):
AAGTTACAGTCGAGCAAATTGAAGATAACAAATCTTATCTCTCTGAAGTTGTAATACAGTAGATG
AAAGATACAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAAGTTAAAGCTATAAATCTTATCTCC
CTAAAGTTACAGTGGAGTAGATTGAAGATAAAAATCTTTATCTCCCTGAAGTTACAATAGAGCAG
ATATAAACCTTATCCCCCTA
Found at i:58929749 original size:58 final size:58
Alignment explanation
Indices: 58929659--58929775 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
58929649 GTGGATGACA
*
58929659 GCGCTATCGCCTGCGACCGGCGGCCGCCACGGTGGCTTGGCGACCGGATGGTGGGTTT
1 GCGCTATCGCCTGCGACCGGCGGCCGCCACGGTGGCTTGACGACCGGATGGTGGGTTT
*
58929717 GCGCTATCGCCTGCGACCGGCGGCCGCCACGGTGGCTTGACGACCGGATGTTGGGTTT
1 GCGCTATCGCCTGCGACCGGCGGCCGCCACGGTGGCTTGACGACCGGATGGTGGGTTT
58929775 G
1 G
58929776 GTTTCAGAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.20
Consensus pattern (58 bp):
GCGCTATCGCCTGCGACCGGCGGCCGCCACGGTGGCTTGACGACCGGATGGTGGGTTT
Found at i:58934593 original size:30 final size:30
Alignment explanation
Indices: 58934557--58934616 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58934547 TTCCCGAGCC
*
58934557 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
58934587 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
58934617 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:58940765 original size:38 final size:38
Alignment explanation
Indices: 58940722--58940852 Score: 145
Period size: 38 Copynumber: 3.2 Consensus size: 38
58940712 TTTCAAATTA
*
58940722 ACATGTATAACCGTGGCATATCCACTTAGCACTACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
58940760 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
58940801 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
58940845 ACATGTAT
1 ACATGTAT
58940853 CAATATGTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
38 34 0.44
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 28 0.36
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:58940934 original size:95 final size:95
Alignment explanation
Indices: 58940767--58941546 Score: 949
Period size: 95 Copynumber: 8.4 Consensus size: 95
58940757 GTTACATGTT
* * * * *
58940767 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
* * *
58940831 CTTAGCACCACGTTACATGTATCAATATGTG
66 CTTAGCACCACGTCA-ATGAATCAATATATG
** * * * * *
58940862 TATGCGTGGTATATCCATTTAGCACCACGTTA-ATGAATCAATATATATAATCATGGCATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
* * *
58940926 CTTAGCACCACGTTACATGTATCAATATGTG
66 CTTAGCACCACGTCA-ATGAATCAATATATG
** * *
58940957 TATGCGTGGTATATCCACTTAGCA-C-C---AC--GT-T--ATATGTTTAACCGTGGTATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
58941012 CTTAGCACCACGTCAATGAATCAATATATG
66 CTTAGCACCACGTCAATGAATCAATATATG
* *
58941042 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
58941107 CTTAGCACCACGTCAATGAATCAATATATG
66 CTTAGCACCACGTCAATGAATCAATATATG
* *
58941137 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
58941202 CTTAGCACCACGTCAATGAATCAATATATG
66 CTTAGCACCACGTCAATGAATCAATATATG
* *
58941232 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
58941297 CTTAGCACCACGTCAATGAATCAATATATG
66 CTTAGCACCACGTCAATGAATCAATATATG
* * *
58941327 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGT-ATGCGTGGTATATCC
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAAT-CGTGGTATATCC
*
58941391 ACTTAGCACCACGT---T--AT--ATGT-T-
65 ACTTAGCACCACGTCAATGAATCAATATATG
* * * * * *
58941413 TAACCGTGGTATATCCACTTAGCACCACGTCA-ATGAATCAATATATGTAACCGTGGCATATCCA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
* * * * *
58941477 CTTAGCACCATGTTACATGTATCAATATGTA
66 CTTAGCACCACGTCA-ATGAATCAATATATG
* * *
58941508 TAATCGTGGTATATCCACTTAGCAGCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
58941547 AACTGTGGTA
Statistics
Matches: 623, Mismatches: 38, Indels: 47
0.88 0.05 0.07
Matches are distributed among these distances:
85 72 0.12
86 64 0.10
87 1 0.00
88 4 0.01
89 2 0.00
90 5 0.01
91 2 0.00
92 3 0.00
93 5 0.01
94 4 0.01
95 457 0.73
96 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (95 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATGTATAATCGTGGTATATCCA
CTTAGCACCACGTCAATGAATCAATATATG
Found at i:58941098 original size:133 final size:133
Alignment explanation
Indices: 58940866--58941572 Score: 925
Period size: 133 Copynumber: 5.2 Consensus size: 133
58940856 TATGTGTATG
* * * * *
58940866 CGTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATATAATCATGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
*
58940931 CACCACGTTACATGTATCAATATGTGT-ATGCGTGGTATATCCACTTAGCACCACGTTATATGTT
66 CACCATGTTACATGTATCAATATGTGTAAT-CGTGGTATATCCACTTAGCACCACGTTATATGTT
58940995 TAAC
130 TAAC
58940999 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
*
58941064 CACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTAGCACCACGTCAATGAATC
66 CACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGT---T--AT-
*
58941129 AATATATGTAAC
125 -ATGT-T-TAAC
* * * * * * * *
58941141 CGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTA
1 CGTGGTATATCCACTTAGCACCACGTCA-ATGAATCAATATATGTAACCGTGGCATATCCACTTA
* * * * * *
58941206 GCACCACGTCA-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTA
65 GCACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACC-----AC--GT-
* *
58941270 TCAATATGTATAAT
122 T--ATATGTTTAAC
58941284 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
58941349 CACCATGTTACATGTATCAATATGTGT-ATGCGTGGTATATCCACTTAGCACCACGTTATATGTT
66 CACCATGTTACATGTATCAATATGTGTAAT-CGTGGTATATCCACTTAGCACCACGTTATATGTT
58941413 TAAC
130 TAAC
58941417 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
1 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
* * * * *
58941482 CACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTAGCAGCACGTTACACGTAT
66 CACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTATATGTTT
58941547 AAC
131 AAC
*
58941550 TGTGGTATATCCACTTAGCACCA
1 CGTGGTATATCCACTTAGCACCA
58941573 TGTTTTTTCA
Statistics
Matches: 504, Mismatches: 49, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
133 267 0.53
134 4 0.01
135 1 0.00
136 3 0.01
138 4 0.01
140 3 0.01
141 1 0.00
142 106 0.21
143 103 0.20
145 3 0.01
147 7 0.01
149 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (133 bp):
CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAG
CACCATGTTACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTATATGTTT
AAC
Found at i:58941149 original size:228 final size:228
Alignment explanation
Indices: 58940724--58941546 Score: 943
Period size: 228 Copynumber: 3.6 Consensus size: 228
58940714 TCAAATTAAC
* * * *
58940724 ATGTATAACCGTGGCATATCCACTTAGCACTACGTTACATGTTTAACCGTGGTATATCCACTTAG
1 ATGTATAATCGTGGTATATCCACTTAGCACCACGTTATATGTTTAACCGTGGTATATCCACTTAG
58940789 CACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATC
66 CACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATC
* * * *
58940854 AATATGTGT-ATGCGTGGTATATCCATTTAGCACCACGTTAATGAATCAATATATATAATCATGG
131 AATATGTGTAAT-CGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGG
58940918 CATATCCACTTAGCACCACGTTACATGTATCAAT
195 CATATCCACTTAGCACCACGTTACATGTATCAAT
*
58940952 ATGTGT-ATGCGTGGTATATCCACTTAGCACCACGTTATATGTTTAACCGTGGTATATCCACTTA
1 ATGTATAAT-CGTGGTATATCCACTTAGCACCACGTTATATGTTTAACCGTGGTATATCCACTTA
* *
58941016 GCACCACGTCAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTAT
65 GCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTAT
* *
58941081 CAATATGTATAATCGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGG
130 CAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGG
*
58941146 CATATCCACTTAGCACCATGTTACATGTATCAAT
195 CATATCCACTTAGCACCACGTTACATGTATCAAT
* *
58941180 ATGTATAATCGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATA
1 ATGTATAATCGTGGTATATCCACTTAGCACCACGT---T--AT--ATGT-T-TAACCGTGGTATA
* * * * * *
58941245 TCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTAGCACCACGT
57 TCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGT
* * * * * * * *
58941310 CA-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGT
121 TACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATAT
** *
58941374 GTATGCGTGGTATATCCACTTAGCA-C-C---AC--GT-T--AT
185 GTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
58941408 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAACCGTGGCATA
1 ATGTATAATCGTGGTATATCCACTTAGCACCACGT---T--AT--ATGT-T-TAACCGTGGTATA
* * * * * * *
58941473 TCCACTTAGCACCATGTTACATGTATCAATATGTATAATCGTGGTATATCCACTTAGCAGCACGT
57 TCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGT
*
58941538 TACACGTAT
121 TACATGTAT
58941547 AACTGTGGTA
Statistics
Matches: 535, Mismatches: 45, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
227 1 0.00
228 370 0.69
229 8 0.01
230 1 0.00
231 3 0.01
233 4 0.01
235 3 0.01
236 1 0.00
237 70 0.13
238 74 0.14
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (228 bp):
ATGTATAATCGTGGTATATCCACTTAGCACCACGTTATATGTTTAACCGTGGTATATCCACTTAG
CACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTTACATGTATC
AATATGTGTAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGC
ATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:58941421 original size:38 final size:40
Alignment explanation
Indices: 58941379--58941572 Score: 153
Period size: 38 Copynumber: 4.6 Consensus size: 40
58941369 TATGTGTATG
*
58941379 CGTGGTATATCCACTTAGCACCACGT-T-ATATGTTTAAC
1 CGTGGTATATCCACTTAGCACCACGTATAATATGTATAAC
*
58941417 CGTGGTATATCCACTTAGCACCACGTCAATGAATCAATATATGTAAC
1 CGTGGTATATCCACTTAGCACCACGT--AT-AAT--ATGTA--TAAC
* *
58941464 CGTGGCATATCCACTTAGCACCATGTTACATGTATCAATATGTATAAT
1 CGTGGTATATCCACTTAGCACC-----AC--GTAT-AATATGTATAAC
* * *
58941512 CGTGGTATATCCACTTAGCAGCACGT-T-ACACGTATAAC
1 CGTGGTATATCCACTTAGCACCACGTATAATATGTATAAC
*
58941550 TGTGGTATATCCACTTAGCACCA
1 CGTGGTATATCCACTTAGCACCA
58941573 TGTTTTTTCA
Statistics
Matches: 127, Mismatches: 13, Indels: 32
0.74 0.08 0.19
Matches are distributed among these distances:
38 55 0.43
40 1 0.01
41 3 0.02
43 4 0.03
45 3 0.02
47 25 0.20
48 23 0.18
50 4 0.03
52 7 0.06
54 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (40 bp):
CGTGGTATATCCACTTAGCACCACGTATAATATGTATAAC
Found at i:58943010 original size:22 final size:23
Alignment explanation
Indices: 58942982--58943038 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
58942972 CACTATTAAA
*
58942982 CTGAAACGGTAAGCTC-TATCGAG
1 CTGAAACAGTAAGCTCATA-CGAG
*
58943005 CT-AAACAGCAAGCTCATACGAG
1 CTGAAACAGTAAGCTCATACGAG
*
58943027 CTGAAACTGTAA
1 CTGAAACAGTAA
58943039 CACTCCTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
CTGAAACAGTAAGCTCATACGAG
Found at i:58944557 original size:43 final size:42
Alignment explanation
Indices: 58944493--58944604 Score: 149
Period size: 41 Copynumber: 2.7 Consensus size: 42
58944483 GCTCGTACAT
*
58944493 TGCCATGTCCCAGATATGGTCTTACATGCG-ATCACATATCGA
1 TGCCATGTCCCAGACATGGTCTTACATGCGAATCACATA-CGA
* *
58944535 TGCCACTGTCCCAGACAGGGTCTTACA--CGAATCATATACGA
1 TGCCA-TGTCCCAGACATGGTCTTACATGCGAATCACATACGA
58944576 TGCCAATGTCCCAGACATGGTCTTACATG
1 TGCC-ATGTCCCAGACATGGTCTTACATG
58944605 TTTTCTCATG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 29 0.48
42 13 0.21
43 19 0.31
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
TGCCATGTCCCAGACATGGTCTTACATGCGAATCACATACGA
Found at i:58948227 original size:85 final size:85
Alignment explanation
Indices: 58948084--58948253 Score: 304
Period size: 85 Copynumber: 2.0 Consensus size: 85
58948074 GAAATACCAT
* *
58948084 AGCTTTAGGGGCTATAGCCGAAATTTCTTCAACTCCTGGATTCGGGTTTTATCTTTGTTTTAAGG
1 AGCTTTAGGGGCTATAGCCGAAATTTCTTCAACTCCTGGATTCGGGTTTTACCATTGTTTTAAGG
* *
58948149 ATAAATTTGCACTGGATTGA
66 ATAAATCTACACTGGATTGA
58948169 AGCTTTAGGGGCTATAGCCGAAATTTCTTCAACTCCTGGATTCGGGTTTTACCATTGTTTTAAGG
1 AGCTTTAGGGGCTATAGCCGAAATTTCTTCAACTCCTGGATTCGGGTTTTACCATTGTTTTAAGG
58948234 ATAAATCTACACTGGATTGA
66 ATAAATCTACACTGGATTGA
58948254 GTGGAAATCG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (85 bp):
AGCTTTAGGGGCTATAGCCGAAATTTCTTCAACTCCTGGATTCGGGTTTTACCATTGTTTTAAGG
ATAAATCTACACTGGATTGA
Found at i:58953937 original size:34 final size:34
Alignment explanation
Indices: 58953894--58953961 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
58953884 TATGGAAGTG
*
58953894 GGAAAGAGTAACTATGGACTTTGTGAGTGGGTTA
1 GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTA
*
58953928 GGAAAGAGTAACAATGTACTTTGTGAGTGGGTTA
1 GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTA
58953962 CCTTTGACAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.06, G:0.34, T:0.29
Consensus pattern (34 bp):
GGAAAGAGTAACAATGGACTTTGTGAGTGGGTTA
Found at i:58957042 original size:29 final size:28
Alignment explanation
Indices: 58957006--58957077 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 28
58956996 TCATGAGATT
*
58957006 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
58957036 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
58957063 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
58957078 ACGGTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
29 34 0.87
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:58957301 original size:174 final size:174
Alignment explanation
Indices: 58957036--58957537 Score: 934
Period size: 174 Copynumber: 2.9 Consensus size: 174
58957026 AAATTGTACA
* *
58957036 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCACGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
58957101 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
58957166 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
58957210 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
58957275 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
58957340 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
58957384 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
58957449 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTC-A
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
58957513 ATTTTGGACAGCGGAAAAGGTAAGT
131 A-TTTGGACAGCGGAAAAGGTAAGT
58957538 ACCTTGAGTT
Statistics
Matches: 319, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
173 2 0.01
174 317 0.99
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:58965724 original size:68 final size:68
Alignment explanation
Indices: 58965641--58965774 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 68
58965631 TTATTAATAA
* *
58965641 TATTGAGTTTGAACATACTCTTATACATATACCCTTTCCCTACAAAAATTCCTCCCTTAGACAAA
1 TATTGAGTTTGAACATACTCTTATACATATACCCTTCCCCTACAAAAATTACTCCCTTAGACAAA
58965706 AAG
66 AAG
* *
58965709 TATTGAGTTTTAACATACTCTTATACATATACCCTTCCCCTACAAAAATTACTCCCTTATACAAA
1 TATTGAGTTTGAACATACTCTTATACATATACCCTTCCCCTACAAAAATTACTCCCTTAGACAAA
58965774 A
66 A
58965775 TAAACTTATC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (68 bp):
TATTGAGTTTGAACATACTCTTATACATATACCCTTCCCCTACAAAAATTACTCCCTTAGACAAA
AAG
Found at i:58970099 original size:13 final size:13
Alignment explanation
Indices: 58970081--58970114 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
58970071 CAAAATTGGC
58970081 TTTTAATTTTGTA
1 TTTTAATTTTGTA
58970094 TTTTAATTTTGTA
1 TTTTAATTTTGTA
58970107 TTTTAATT
1 TTTTAATT
58970115 CATTTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTGTA
Found at i:58972524 original size:74 final size:74
Alignment explanation
Indices: 58972403--58972550 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
58972393 TTATTCATTA
*
58972403 AAATTTCCCCTGTTTCACTTTCTGACAGTTCTGACCTCTCTACACTAAAAAATAATTATCTCACA
1 AAATTTCCCCTGTTTCACTTTCTGACAGTTCTAACCTCTCTACACTAAAAAATAATTATCTCACA
58972468 GTACAGAAC
66 GTACAGAAC
*
58972477 AAATTTCCCCTGTTTCACTTTCTGACAGTTCTAACCTCTCTTCACTAAAAAATAATTATCTCACA
1 AAATTTCCCCTGTTTCACTTTCTGACAGTTCTAACCTCTCTACACTAAAAAATAATTATCTCACA
58972542 GTACAGAAC
66 GTACAGAAC
58972551 TCGGATAATG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.33
Consensus pattern (74 bp):
AAATTTCCCCTGTTTCACTTTCTGACAGTTCTAACCTCTCTACACTAAAAAATAATTATCTCACA
GTACAGAAC
Found at i:58972898 original size:74 final size:74
Alignment explanation
Indices: 58972776--58972921 Score: 213
Period size: 74 Copynumber: 2.0 Consensus size: 74
58972766 AGACTCATTT
* * * * * *
58972776 ATCTTTAATTTGATATGTCTTTCAGTCTCTGATTCAATTTATACTATTTTTTGTGATTTTTTAAA
1 ATCTTTAATTTGATATCTCTTTCAGTATCTGATTCAATTTATAATATTTTTGGTAATTTTTCAAA
58972841 AACACGTTA
66 AACACGTTA
58972850 ATCTTTAATTTGATATCT-TATTCAGTATCTGATTCAATTTATAATATTTTTGGTAATTTTTCAA
1 ATCTTTAATTTGATATCTCT-TTCAGTATCTGATTCAATTTATAATATTTTTGGTAATTTTTCAA
*
58972914 AATCACGT
65 AAACACGT
58972922 CACTGCTACT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 1 0.02
74 63 0.98
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.51
Consensus pattern (74 bp):
ATCTTTAATTTGATATCTCTTTCAGTATCTGATTCAATTTATAATATTTTTGGTAATTTTTCAAA
AACACGTTA
Found at i:58974705 original size:13 final size:13
Alignment explanation
Indices: 58974687--58974720 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
58974677 CAAAATTGGC
58974687 TTTTAATTTTGTA
1 TTTTAATTTTGTA
58974700 TTTTAATTTTGTA
1 TTTTAATTTTGTA
58974713 TTTTAATT
1 TTTTAATT
58974721 CATTTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTGTA
Found at i:58976206 original size:47 final size:47
Alignment explanation
Indices: 58976136--58976354 Score: 211
Period size: 47 Copynumber: 4.7 Consensus size: 47
58976126 GGGTAAGGTA
58976136 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTC-AAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATATCTCGAAG
* *
58976183 TCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTAT-ATCTCGAAG
* * * * *
58976231 CCGATG-CATGTCCCCGACAT-GTCTTACCCTGGGT-TACTCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATA-TCTCGAAG
* * *
58976276 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCCCT-TGTCTCGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG--CTATATCTCGAAG
** *
58976322 CAAATGCCATGTCCCAGACATGGTCTTAAACTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTA
58976355 TCTCTCATAA
Statistics
Matches: 144, Mismatches: 19, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 35 0.24
46 24 0.17
47 67 0.47
48 17 0.12
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATATCTCGAAG
Found at i:58976336 original size:139 final size:140
Alignment explanation
Indices: 58976136--58976396 Score: 343
Period size: 139 Copynumber: 1.9 Consensus size: 140
58976126 GGGTAAGGTA
* *
58976136 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGTCAATGCCATGTCCCAGA
* * * *
58976201 CATGGTCTTACACTGA-CTATCAT-CTCGTAGCCGATGCATGTCCCCGACATGTCTTACCCTGGG
66 CATGGTCTTAAACT-ATCTATCATAAT-GTAGCCGATGCATGTCCCAGACATATCTTACCCTGGG
58976264 TTACTCTCGAGG
129 TTACTCTCGAGG
* * * *
58976276 CCGATG-CATGTCCTAGACAT-GTCTTACACTAGCCCTTGTCTCGA-TGCAAATGCCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGT-C-AATGCCATGTCCCA
* *
58976338 GACATGGTCTTAAACTATCTCTCATAATGTGGCCGATGCATGTCCCAGACATATCTTAC
64 GACATGGTCTTAAACTATCTATCATAATGTAGCCGATGCATGTCCCAGACATATCTTAC
58976397 AGAAGTCACA
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
137 1 0.01
138 22 0.21
139 75 0.71
140 7 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCCCATATCTCAAGTCAATGCCATGTCCCAGA
CATGGTCTTAAACTATCTATCATAATGTAGCCGATGCATGTCCCAGACATATCTTACCCTGGGTT
ACTCTCGAGG
Found at i:58978503 original size:49 final size:49
Alignment explanation
Indices: 58978433--58978672 Score: 234
Period size: 49 Copynumber: 4.8 Consensus size: 49
58978423 TGAGGTCATG
58978433 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * *
58978482 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
** * *
58978533 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATGCAGGCTAC-TA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT--TGG-T-CGCA
* * *
58978585 CGTGTACCGGA-TAA-TGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTA--GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * *
58978634 TGTTTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
58978673 GATTTGGCTA
Statistics
Matches: 154, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
47 2 0.01
48 4 0.03
49 64 0.42
50 5 0.03
51 41 0.27
52 32 0.21
53 4 0.03
54 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:58978576 original size:26 final size:26
Alignment explanation
Indices: 58978547--58978625 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
58978537 TAGTACTAAG
*
58978547 TGCAGGCTACTACGTGTACTGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
58978573 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
58978599 TGCAGGCTACTACGTGTACCGGATAA
1 TGCAGGCTACTACGTGTACCGGATAA
58978625 T
1 T
58978626 TGGTCGCATG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (26 bp):
TGCAGGCTACTACGTGTACCGGATAA
Found at i:58978683 original size:101 final size:103
Alignment explanation
Indices: 58978433--58978672 Score: 244
Period size: 100 Copynumber: 2.4 Consensus size: 103
58978423 TGAGGTCATG
* * * * *
58978433 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAAT--TGG-T-CGCATGTGTA--GTAC
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGCAGGCTAC-TACGTGTACCGGA-
* *
58978492 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
64 TAA-TGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
* **
58978533 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATGCAGGCTACTACGTGTACCGGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGCAGGCTACTACGTGTACCGGATA
* * * *
58978598 ATGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCA
66 ATGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
* * *
58978634 TGTTTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
58978673 GATTTGGCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
100 39 0.34
101 37 0.32
102 4 0.03
103 30 0.26
104 4 0.03
105 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (103 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATGCAGGCTACTACGTGTACCGGATA
ATGCAGGCTACTACGCGTACCCGATAACTTCGATCACA
Found at i:58983216 original size:49 final size:50
Alignment explanation
Indices: 58983155--58983441 Score: 292
Period size: 49 Copynumber: 5.8 Consensus size: 50
58983145 GATGTCACGC
* *
58983155 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GTTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
* * * * * *
58983204 TTGTAGTACTAAGTGTAGGCTATTATGCGTACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TTCGATCGCAT
* * * * * *
58983255 GTGTAGTACTAAGTGCAGGCTATTACGTGTATCGGTTAATT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
* * * * *
58983304 GTGTAGTACTAAGTTCAGGCTACTATGCATACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TTCGATCGCAT
* * * * * * *
58983355 GTGTAGTACTAAGTGCAGCCTAGTACGTGTACTGGATAATT-GGTTGCAT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
*
58983404 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATA
58983442 GCTTTGGCTA
Statistics
Matches: 187, Mismatches: 47, Indels: 8
0.77 0.19 0.03
Matches are distributed among these distances:
49 106 0.57
50 8 0.04
51 73 0.39
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGATCGCAT
Found at i:58983472 original size:100 final size:100
Alignment explanation
Indices: 58983149--58983441 Score: 428
Period size: 100 Copynumber: 2.9 Consensus size: 100
58983139 TATTGTGATG
* * * *
58983149 TCACGCGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GTTCGCATTTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTT-GCATGTGTAGTAC
* *
58983213 TAAGTGTAGGCTATTATGCGTACCCGATAACTTCGA
65 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* * *
58983249 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTA-TCGGTTAATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGATAATTGGTTGCATGTGTAGTAC
* *
58983313 TAAGTTCAGGCTACTATGCATACCCGATAACTTCGA
65 TAAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
* *
58983349 TCACGTGTGTAGTACTAAGTGCAGCCTAGTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
*
58983414 AAGTGCAGGCTACTATGCGTACCAGATA
66 AAGTGCAGGCTACTATGCGTACCCGATA
58983442 GCTTTGGCTA
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
100 169 0.98
101 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTTGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
Found at i:58990172 original size:22 final size:21
Alignment explanation
Indices: 58990133--58990173 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
58990123 CACCTGACAC
*
58990133 AGGGGCACACGCCCGTGTGGA
1 AGGGGCACACGCCAGTGTGGA
*
58990154 AGGGGCAACACGCTAGTGTG
1 AGGGGC-ACACGCCAGTGTG
58990174 ACTAGGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.22, C:0.24, G:0.41, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCAGTGTGGA
Found at i:58991428 original size:46 final size:47
Alignment explanation
Indices: 58991248--58991510 Score: 165
Period size: 46 Copynumber: 5.6 Consensus size: 47
58991238 TAAGGTGCCA
* *
58991248 ATGCTATGTCCCAGACATGGTCTTACACTA--ACTCATATCTC-AAGTCG
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATA-CTCGAGGCCG
* * *
58991295 ATGC-TAGTCCCAAACATGGTCTTACACT-G-ACT-ATCATCTTGCA-GCCA
1 ATGCAT-GTCCCAGACAT-GTCTTACACTAGCACTCAT-A-CTCG-AGGCCG
* * * *
58991342 ATGCATGTCCCCGACATGTCTTAC-CTTG-GCTTATTACTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCA-TACTCGAGGCCG
* * * *
58991388 ATGCATGTCCTAGACATGTCTTACACTAGCACTCGT-CTCGATGCTG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTCATACTCGAGGCCG
* * * * *
58991434 ATGCTATGTCCCAGA-ATGGTCTTACACTGGCTCTCATAAT-GTGGCCA
1 ATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCATACTCGAGGCCG
*
58991481 ATGCATGTCCCAAACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
58991511 TCACAATAAC
Statistics
Matches: 172, Mismatches: 28, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
45 6 0.03
46 101 0.59
47 59 0.34
48 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTCATACTCGAGGCCG
Done.