Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 31 of 279
Found at i:10301545 original size:49 final size:48
Alignment explanation
Indices: 10301399--10301611 Score: 151
Period size: 48 Copynumber: 4.5 Consensus size: 48
10301389 GACTATAGCT
* * *
10301399 AGTGTAAGACATGTCTGGGACATG-CATTTGCCTCGAGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACATGACA-TCGCCTCGATATATGA-AAGTC
* * * * * *
10301446 TAGTGTAGGACCTGTCTGGGACATGGCGTCAG-CTTG-T-TGTG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGACATC-GCCTCGATATATGAAAGTC
10301491 AGTGTAAGACCTGTCTGGGACATGACATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGACATC-GCCTCGATATATGAAAGTC
* * * * *
10301540 AGTGTAAGACCTGTTTGGGACACGACATCGACT--TTA-ATGTAATAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGCCTCGATATATG-AA-AGTC
10301587 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACC-TGTCTGGGACATG
10301612 GTGTCGCAAT
Statistics
Matches: 131, Mismatches: 22, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
44 28 0.21
45 7 0.05
46 7 0.05
47 17 0.13
48 40 0.31
49 32 0.24
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGCCTCGATATATGAAAGTC
Found at i:10301559 original size:93 final size:91
Alignment explanation
Indices: 10301306--10301611 Score: 252
Period size: 92 Copynumber: 3.3 Consensus size: 91
10301296 GTATGTGAGC
* * *
10301306 CAGTGTAAGACATGTCTGGGACATCCATCGG-CTAC-AT-TATGAGAGCCAGTGTAAGACATGTT
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGATATATGAAAG-CAGTGTAAGACCTGTT
10301368 TGGGACATGCATCAGCATTAAGACTATAG
64 TGGGACATGCATCAGCATT-AGACTATAG
** * *
10301397 CTAGTGTAAGACATGTCTGGGACATGCATTTGCCTCGAGATAT-ACAAGCTAGTGTAGGACCTGT
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATATGA-AAGC-AGTGTAAGACCTGT
* * * * *
10301461 CTGGGACATGGCGTCAGC-TT-G-TTGTGTG
63 TTGGGACAT-GCATCAGCATTAGACTAT-AG
*
10301489 TCAGTGTAAGACCTGTCTGGGACATGACATCGGCCTCGATATATGAAAGTCAGTGTAAGACCTGT
1 -CAGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGATATATGAAAG-CAGTGTAAGACCTGT
* * *
10301554 TTGGGACACGACATC-GACTTTA-ATGTAATAG
63 TTGGGACATG-CATCAG-CATTAGA-CT-ATAG
10301585 CCAGTGTAAGACCATGTCTGGGACATG
1 -CAGTGTAAGA-CATGTCTGGGACATG
10301612 GTGTCGCAAT
Statistics
Matches: 170, Mismatches: 25, Indels: 34
0.74 0.11 0.15
Matches are distributed among these distances:
91 3 0.02
92 55 0.32
93 47 0.28
94 31 0.18
95 7 0.04
96 12 0.07
97 15 0.09
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (91 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATATATGAAAGCAGTGTAAGACCTGTTTG
GGACATGCATCAGCATTAGACTATAG
Found at i:10305389 original size:30 final size:30
Alignment explanation
Indices: 10305353--10305412 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
10305343 TTTTACGAGC
* *
10305353 TTAGGGGGAAAAGTGTAATTATGATAAAAT
1 TTAGGGGCAAAAATGTAATTATGATAAAAT
*
10305383 TTAGGGGCAAAAATGTAATTTTGATAAAAT
1 TTAGGGGCAAAAATGTAATTATGATAAAAT
10305413 ATGACATTTG
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:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (30 bp):
TTAGGGGCAAAAATGTAATTATGATAAAAT
Found at i:10305795 original size:42 final size:42
Alignment explanation
Indices: 10305748--10305856 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
10305738 AGATTCTGTG
* * *
10305748 TAAGACCATATCCGGGATATGGCCTCGGTATG-TGATTTCGTA
1 TAAGACCATATCCGGGATATGGCATCGATATGAT-ATTTCATA
* * * *
10305790 TAAGACCATGT-CGAGGACATGTCATCGATATGATATTTCATG
1 TAAGACCATATCCG-GGATATGGCATCGATATGATATTTCATA
*
10305832 TAAGACCATATCGGGGATATGGCAT
1 TAAGACCATATCCGGGATATGGCAT
10305857 TGAAACAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
41 2 0.04
42 49 0.92
43 2 0.04
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TAAGACCATATCCGGGATATGGCATCGATATGATATTTCATA
Found at i:10315777 original size:55 final size:53
Alignment explanation
Indices: 10315652--10315903 Score: 243
Period size: 53 Copynumber: 4.8 Consensus size: 53
10315642 ATTAGGGTTT
* * *
10315652 AAGGATAACATGTAAGACCATGCCAATG-CATGGCAATTGGTAAG-AC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAA-GACATGGC-ATTGGTAAGTTCATAAGGC
* * *
10315704 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
10315759 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
* *
10315812 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
10315861 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
10315904 GTACCTATGT
Statistics
Matches: 170, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
49 39 0.23
51 10 0.06
52 35 0.21
53 42 0.25
54 1 0.01
55 39 0.23
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:10315855 original size:108 final size:107
Alignment explanation
Indices: 10315660--10315856 Score: 297
Period size: 108 Copynumber: 1.8 Consensus size: 107
10315650 TTAAGGATAA
* *
10315660 CATGTAAGACCATGCCAATGCATGGCAATTGGTAAGACTAAGGCAAGGAAATCATGTAAGACCAT
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGACTAAGGCAAGGAAACCATGTAAGACCAT
*
10315725 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCC
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
* * *
10315767 CATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAGTTCATAAGGCAAGGATACCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAG-AC-TAAGGCAAGGAAACCATGTAAGACC
* *
10315831 ATGTCGAGACATGGCAATGGTAAGTT
64 ATGTCAAGACATGGCAATGATAAGTT
10315857 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
106 8 0.10
107 26 0.32
108 46 0.57
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (107 bp):
CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGACTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:10316116 original size:16 final size:16
Alignment explanation
Indices: 10316095--10316125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10316085 ATAAATTCGA
10316095 TTAAGTAAGTAAGTAG
1 TTAAGTAAGTAAGTAG
*
10316111 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
10316126 ACTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAG
Found at i:10318874 original size:50 final size:50
Alignment explanation
Indices: 10318757--10319036 Score: 242
Period size: 50 Copynumber: 5.6 Consensus size: 50
10318747 TGTGAGAACT
* * * * *
10318757 CATGTGTAGTACTATGTGCAGGCTACTAAGTGTTTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT--ATTTAGGTCA
* * * **
10318809 CGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATATTTAGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATATTTAGGTCA
* * ** * * * * *
10318859 CATGTGTAGTACTAAGTGCAAGCTACTATGCATACCCGACAACTTCA-ATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TA-TTTAGGTCA
* * **
10318910 CGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATATTTAGGTCA
* * * *
10318960 CGTGTGTAGTACTACGTGTAGGCTACTACGTGTATCAGAT-TGTT-GGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAT-TTAGGTCA
*
10319009 CATGTGTAGTACTAAGTGTAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
10319037 TACGTACCAA
Statistics
Matches: 184, Mismatches: 40, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
49 32 0.17
50 83 0.45
51 33 0.18
52 36 0.20
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATATTTAGGTCA
Found at i:10318935 original size:101 final size:101
Alignment explanation
Indices: 10318806--10318987 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
10318796 TGGTTTTAGG
* **
10318806 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATATTTAGGTTGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
10318871 TAAGTGCAAGCTACTATGCATACCCGACAACTTCAA
66 TAAGTGCAAGCTACTATGCATACCCGACAACTTCAA
* * * * *
10318907 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
* * *
10318972 TACGTGTAGGCTACTA
66 TAAGTGCAAGCTACTA
10318988 CGTGTATCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATGCATACCCGACAACTTCAA
Found at i:10329157 original size:48 final size:47
Alignment explanation
Indices: 10329086--10329258 Score: 229
Period size: 48 Copynumber: 3.6 Consensus size: 47
10329076 TATGTGTGCT
* * *
10329086 AGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-CCATATTATGAGAGCC
*
10329134 AGTGTAAGACCATGTATGGGACATGGCATCGGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCATATTATGAGAGCC
* * * * * *
10329182 AGTGTAAGACCATGTTTGGGACATGGTATTGGCATTGTTATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCA-TATTATGAGAGCC
10329230 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
10329259 TAGCAACTTA
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
47 3 0.03
48 107 0.96
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCATATTATGAGAGCC
Found at i:10337777 original size:18 final size:17
Alignment explanation
Indices: 10337750--10337785 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10337740 GCATATCTGG
*
10337750 ACTGTTACTGTTGCTGC
1 ACTGTTACTGTTACTGC
10337767 ACTGTTTACTGTTACTGC
1 ACTG-TTACTGTTACTGC
10337785 A
1 A
10337786 ATAGGCCAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (17 bp):
ACTGTTACTGTTACTGC
Found at i:10341861 original size:96 final size:96
Alignment explanation
Indices: 10341704--10341882 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 96
10341694 GCACATCAAT
** * *
10341704 CAGAATAGATCTGAAAGGCTGTTGAACTGAATAGAGTTTACTTTTTCCTCTATTTATTTATTTTA
1 CAGAATAGATCCAAAAGGCTGTTCAACTGAATAGAGTTTACTCTTTCCTCTATTTATTTATTTTA
*
10341769 ATTATGTTTGCTTTGAGTGGAGTGCATCATA
66 ATTATATTTGCTTTGAGTGGAGTGCATCATA
*
10341800 CAGAATAGATCCAAAAGGTTGTTCAACTGAATAGAGTTTACTCTTTCCTCT-TGTTATTTATTTT
1 CAGAATAGATCCAAAAGGCTGTTCAACTGAATAGAGTTTACTCTTTCCTCTAT-TTATTTATTTT
*
10341864 AGTTATATTTGCTTTGAGT
65 AATTATATTTGCTTTGAGT
10341883 TTATTTTTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 74 0.99
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (96 bp):
CAGAATAGATCCAAAAGGCTGTTCAACTGAATAGAGTTTACTCTTTCCTCTATTTATTTATTTTA
ATTATATTTGCTTTGAGTGGAGTGCATCATA
Found at i:10348532 original size:51 final size:51
Alignment explanation
Indices: 10348473--10348576 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 51
10348463 CTTATGCAAC
* * * *
10348473 ACAGTCAAGTCAAACGCTCGTGTGCTAGGCCGTGTGCCAATTAGGGGATAT
1 ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGATAT
*
10348524 ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGGTAT
1 ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGATAT
10348575 AC
1 AC
10348577 TGACTTGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (51 bp):
ACAGTCAAGTCAAACGCCCATGTGCTAAGCCGTGTGCCAACTAGGGGATAT
Found at i:10349350 original size:13 final size:13
Alignment explanation
Indices: 10349332--10349357 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10349322 ATATTATAAT
10349332 TATTTTATGTTAA
1 TATTTTATGTTAA
10349345 TATTTTATGTTAA
1 TATTTTATGTTAA
10349358 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:10352963 original size:40 final size:40
Alignment explanation
Indices: 10352908--10353212 Score: 565
Period size: 40 Copynumber: 7.6 Consensus size: 40
10352898 ATATGTTATT
* * *
10352908 TCCGGGCTCAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
10352948 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
*
10352988 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
10353028 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
*
10353068 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
10353108 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
10353148 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
10353188 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATT
10353213 TTAGTGATGC
Statistics
Matches: 258, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 258 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATA
Found at i:10354984 original size:47 final size:47
Alignment explanation
Indices: 10354926--10355320 Score: 718
Period size: 47 Copynumber: 8.4 Consensus size: 47
10354916 CAGCCAAGAC
10354926 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
10354973 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
10355020 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
10355067 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
10355114 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
10355161 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
10355208 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
10355255 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
10355302 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
10355321 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 338 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:10355495 original size:37 final size:37
Alignment explanation
Indices: 10355439--10355517 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
10355429 CCGAGCTCTA
* * *
10355439 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
10355476 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
10355513 AAGAC
1 AAGAC
10355518 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:10356829 original size:28 final size:28
Alignment explanation
Indices: 10356788--10356841 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
10356778 ATACCGTTAA
*
10356788 ATACTCAATGTCTCACACACTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
* *
10356816 ATACTCGATATCTCACACATTAAGTG
1 ATACTCAATATCTCACACACTAAGTG
10356842 TCGTACATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:10359619 original size:27 final size:28
Alignment explanation
Indices: 10359573--10359626 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
10359563 TACCTGGACC
10359573 CCCTATATATGATAAAATGACTATTTTA
1 CCCTATATATGATAAAATGACTATTTTA
* *
10359601 CCCT-TATATGGTAAGATGACTATTTT
1 CCCTATATATGATAAAATGACTATTTT
10359627 GTTCCAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (28 bp):
CCCTATATATGATAAAATGACTATTTTA
Found at i:10380352 original size:31 final size:31
Alignment explanation
Indices: 10380314--10380377 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10380304 CCTTTTCATA
10380314 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10380345 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10380376 TT
1 TT
10380378 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10380677 original size:25 final size:24
Alignment explanation
Indices: 10380571--10380691 Score: 183
Period size: 24 Copynumber: 5.0 Consensus size: 24
10380561 GCTTTATCAT
*
10380571 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
10380596 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10380619 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
10380643 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
10380668 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
10380692 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 18 0.20
24 41 0.46
25 31 0.34
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:10380685 original size:49 final size:48
Alignment explanation
Indices: 10380562--10380691 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
10380552 AGCATAGCTG
*
10380562 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCC
*
10380613 CTTT-TAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCC
10380661 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATCATAACTGGGGCATAAGCCCTTTTA
10380692 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 22 0.30
48 21 0.29
49 25 0.34
50 1 0.01
51 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCC
Found at i:10380765 original size:20 final size:20
Alignment explanation
Indices: 10380740--10380806 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
10380730 TTATGAATAC
10380740 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
10380760 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10380780 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
10380800 ACCATGT
1 ATCATGT
10380807 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:10380771 original size:11 final size:11
Alignment explanation
Indices: 10380740--10380795 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
10380730 TTATGAATAC
10380740 ATCATGTGCAT
1 ATCATGTGCAT
*
10380751 ATCA--TACAT
1 ATCATGTGCAT
10380760 ATCATGTGCAT
1 ATCATGTGCAT
*
10380771 ATCA--TACAT
1 ATCATGTGCAT
*
10380780 GTCATGTGCAT
1 ATCATGTGCAT
10380791 ATCAT
1 ATCAT
10380796 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:10394818 original size:8 final size:8
Alignment explanation
Indices: 10394805--10394830 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10394795 TTATCAGCTC
10394805 TTATTATT
1 TTATTATT
10394813 TTATTATT
1 TTATTATT
10394821 TTATTATT
1 TTATTATT
10394829 TT
1 TT
10394831 GAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTATT
Found at i:10396568 original size:29 final size:29
Alignment explanation
Indices: 10396535--10396590 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
10396525 GAGCCATATG
10396535 CTCACAAATAACACATACAATGGTGAGTA
1 CTCACAAATAACACATACAATGGTGAGTA
* *
10396564 CTCACAAATCATACATACAATGGTGAG
1 CTCACAAATAACACATACAATGGTGAG
10396591 CCATATGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (29 bp):
CTCACAAATAACACATACAATGGTGAGTA
Found at i:10398204 original size:15 final size:15
Alignment explanation
Indices: 10398184--10398235 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
10398174 AAAAATATTC
10398184 TTATTTTGGAAAATA
1 TTATTTTGGAAAATA
*
10398199 TTATTTCT-AAAAATA
1 TTATTT-TGGAAAATA
*
10398214 TTTTTTTTGGAAAATA
1 -TTATTTTGGAAAATA
*
10398230 CTATTT
1 TTATTT
10398236 ACCGATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (15 bp):
TTATTTTGGAAAATA
Found at i:10398225 original size:31 final size:33
Alignment explanation
Indices: 10398173--10398235 Score: 103
Period size: 31 Copynumber: 2.0 Consensus size: 33
10398163 TTAATTTTTT
*
10398173 TAAAAATATTCTTATTTTGGAAAATATTATTTC
1 TAAAAATATTCTTATTTTGGAAAATACTATTTC
10398206 TAAAAATATT-TT-TTTTGGAAAATACTATTT
1 TAAAAATATTCTTATTTTGGAAAATACTATTT
10398236 ACCGATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 17 0.59
32 2 0.07
33 10 0.34
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (33 bp):
TAAAAATATTCTTATTTTGGAAAATACTATTTC
Found at i:10406961 original size:94 final size:93
Alignment explanation
Indices: 10406813--10407732 Score: 905
Period size: 94 Copynumber: 9.8 Consensus size: 93
10406803 ATTGTTTCAT
* * * * ** * * *
10406813 TGCAACTTTAAGGAGATAAGATTTGTTATTGTAGTTTCAATCC-ATTTCATTGCAATTTTAGGGA
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGA-CCCACTGCAACTTAAGGG-
* * **
10406877 TATAGGATTTGTAGC-TCTACCTTACTCCGT
64 TATAGGATTTGTAGCTTC-ATCTTGCTCCAC
* * * * *
10406907 TGCAACTTCAAGGAGAAAAGATTTGTTATGGTAGCTTCAATCGGACCCACTGCAACTTTAAGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAAC-TTAAGGGT
* * * * *
10406972 ATTGGATTTGTAGCTTTATTTTGCCCCAT
65 ATAGGATTTGTAGCTTCATCTTGCTCCAC
* * * * * * * * * *
10407001 TGCAGCTTTAGGGAGATAAGATATGTTATGGTGGTTTCAATCTGACCCACTACAACTTCAGGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTT-AAGGGT
* *
10407066 ATAGGAATTGTAACTTCATCTTGCTCCAC
65 ATAGGATTTGTAGCTTCATCTTGCTCCAC
* * * * * *
10407095 TACAACATT-AAGGAGATAAGATTCT-CTATGGTAGCTTCAATTCGACCCACTACAACTTTAGAG
1 TGCAAC-TTCAGGGAGATAAGATT-TGCTATTGTAGCTTCAATCCGACCCACTGCAACTTAAG-G
* *
10407158 GTATAGGATTTGTAGTTTCATCTTGCTCTAC
63 GTATAGGATTTGTAGCTTCATCTTGCTCCAC
* * * * * *
10407189 TACAACTTTAGGGAGATAAGATTCGCTATAGTAGCTTCAATCTGACCCACTGCAACTTTAGGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAAC-TTAAGGGT
* * * *
10407254 ATAAGATTTGTAACTTCATTTTACTCCAC
65 ATAGGATTTGTAGCTTCATCTTGCTCCAC
* ** * *
10407283 TGCAACTTTAAAGAGATAAGATTTGCTATGGTAGCTTCAATCCGACCCATTGCAACTTCAAGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTT-AAGGGT
* *
10407348 ATAGGATTTGTAGCTTTATCTTGCT-CAA
65 ATAGGATTTGTAGCTTCATCTTGCTCCAC
* * ** * * * * * *
10407376 TAACAACTTCAGGGAAATAAGATTTTTTATTGTAGCTTCATTCCAAACCACTACAACTTCAGAGT
1 T-GCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTTAAG-GG
* * * *
10407441 TACAAGATTTCTAGCTTCATCTTGCTGCAC
64 TATAGGATTTGTAGCTTCATCTTGCTCCAC
** *
10407471 TGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCCGACCCACTGCAACTTCAAGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTT-AAGGGT
*
10407536 ATAGGATTTGTAGCTTTATCTTGCTCCAC
65 ATAGGATTTGTAGCTTCATCTTGCTCCAC
* *
10407565 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTACAATCCGACCCACTGCAACTTCAAGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTT-AAGGGT
10407630 ATAGGATTTGTAGCTTCATCTTGCTCCAC
65 ATAGGATTTGTAGCTTCATCTTGCTCCAC
* ** * *
10407659 TGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTAACCCATTGCAACTTCAGGGGT
1 TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTT-AAGGGT
10407724 ATAGGATTT
65 ATAGGATTT
10407733 ATGGTTTCAC
Statistics
Matches: 690, Mismatches: 121, Indels: 30
0.82 0.14 0.04
Matches are distributed among these distances:
93 12 0.02
94 659 0.96
95 19 0.03
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (93 bp):
TGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCAATCCGACCCACTGCAACTTAAGGGTA
TAGGATTTGTAGCTTCATCTTGCTCCAC
Found at i:10407324 original size:282 final size:282
Alignment explanation
Indices: 10406909--10407741 Score: 1037
Period size: 282 Copynumber: 3.0 Consensus size: 282
10406899 TACTCCGTTG
* * * * * *
10406909 CAACTTCAAGGAGAAAAGATTTGTTATGGTAGCTTCAATCGGACCCACTGCAACTTTAAGGGTAT
1 CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
* * * * * * * *
10406974 TGGATTTGTAGCTTTATTTTGCCCCATTGCAGCTTTAGGGAGATAAGATATGTTATGGTGGTTTC
66 AGGATTTGTAGCTTTATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
* * * * *
10407039 AATCTGACCCACTACAACTTCAGGGGTATAGGAATTGTAACTTCATCTTGCTCCACTACAACATT
131 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAAC-TT
* * * *
10407104 -AAGGAGATAAGATTCTCTATGGTAGCTTCAATTCGACCCACTACAACTTTAGAGGTATAGGATT
195 CAGGGAGATAAGATTCTCTATTGTAGCTTCAATTCAACCCACTACAACTTCAGAGGTATAGGATT
*
10407168 TGTAGTTTCATCTTGCT-CTACTA
260 TATAGTTTCATCTTGCTGC-ACTA
* * *
10407191 CAACTTTAGGGAGATAAGATTCGCTATAGTAGCTTCAATCTGACCCACTGCAACTTTAGGGGTAT
1 CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
* * * * **
10407256 AAGATTTGTAACTTCATTTTACTCCACTGCAACTTTAAAGAGATAAGATTTGCTATGGTAGCTTC
66 AGGATTTGTAGCTTTATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
* * *
10407321 AATCCGACCCATTGCAACTTCAAGGGTATAGGATTTGTAGCTTTATCTTGCT-CAATAACAACTT
131 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACT-ACAACTT
* * * * * * *
10407385 CAGGGAAATAAGATTTTTTATTGTAGCTTC-ATTCCAAACCACTACAACTTCAGAGTTACAAGAT
195 CAGGGAGATAAGATTCTCTATTGTAGCTTCAATT-CAACCCACTACAACTTCAGAGGTATAGGAT
* * *
10407449 TTCTAGCTTCATCTTGCTGCACTG
259 TTATAGTTTCATCTTGCTGCACTA
* * * *
10407473 CAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCCGACCCACTGCAACTTCAAGGGTAT
1 CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
* * * * *
10407538 AGGATTTGTAGCTTTATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTAC
66 AGGATTTGTAGCTTTATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
*
10407603 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTC
131 AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTC
* * * *
10407668 AGGGAGATAAGATTCGCTATTGTAGCTTCAA-TCTAACCCATTGCAACTTCAGGGGTATAGGATT
196 AGGGAGATAAGATTCTCTATTGTAGCTTCAATTC-AACCCACTACAACTTCAGAGGTATAGGATT
*
10407732 TATGGTTTCA
260 TATAGTTTCA
10407742 CTGATCTATT
Statistics
Matches: 464, Mismatches: 80, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
281 9 0.02
282 450 0.97
283 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (282 bp):
CAACTTCAGGGAGATAAGATTCGCTATAGTAGCTTCAATCCGACCCACTGCAACTTTAAGGGTAT
AGGATTTGTAGCTTTATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATGGTAGCTTC
AATCCGACCCACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTC
AGGGAGATAAGATTCTCTATTGTAGCTTCAATTCAACCCACTACAACTTCAGAGGTATAGGATTT
ATAGTTTCATCTTGCTGCACTA
Found at i:10407492 original size:44 final size:44
Alignment explanation
Indices: 10407047--10407681 Score: 194
Period size: 44 Copynumber: 13.6 Consensus size: 44
10407037 TCAATCTGAC
* * * *
10407047 CCACTACAACTTCAGGG-GTATAGGAATTGTAACTTCATCTTGCT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* * *
10407091 CCACTACAACATT-AAGGAGATAAGATTCTCTATGGTAGCTTCAAT-TCGAC-
1 CCACTGCAAC-TTCAGGGAGATAAGA---T-T-T-GTAGCTTC-ATCTTG-CT
* * * * *
10407141 CCACTACAACTTTAGAGG-TATAGGATTTGTAGTTTCATCTTGCT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTCATCTTGCT
* * *
10407185 CTACTACAACTTTAGGGAGATAAGATTCGCTATAGTAGCTTCAATC-TGAC-
1 CCACTGCAACTTCAGGGAGATAAGA-T---T-T-GTAGCTTC-ATCTTG-CT
* * * *
10407235 CCACTGCAACTTTAGGG-GTATAAGATTTGTAACTTCATTTTACT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCATCTTGCT
* ** *
10407279 CCACTGCAACTTTAAAGAGATAAGATTTGCTATGGTAGCTTCAATC-CGAC-
1 CCACTGCAACTTCAGGGAGATAAGA--T--T-T-GTAGCTTC-ATCTTG-CT
* * * *
10407329 CCATTGCAACTTCAAGGG-TATAGGATTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTCATCTTGCT
* * * * *
10407373 -CAATAACAACTTCAGGGAAATAAGATTTTTTATTGTAGCTTCA--TTCCAAA
1 CCACT-GCAACTTCAGGGAGATAAGA-----T-TTGTAGCTTCATCTTGC--T
* * ** * *
10407423 CCACTACAACTTCAGAGTTACAAGATTTCTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCT
* * *
10407467 GCACTGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATC-CGAC-
1 CCACTGCAACTTCAGGGAGATAAG----A-T-TTGTAGCTTC-ATCTTG-CT
* * *
10407517 CCACTGCAACTTCAAGGG-TATAGGATTTGTAGCTTTATCTTGCT
1 CCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTCATCTTGCT
* *
10407561 CCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTACAATC-CGAC-
1 CCACTGCAACTTCAGGGAGATAAGA-----T-TTGTAGCTTC-ATCTTG-CT
* *
10407611 CCACTGCAACTTCAAGGG-TATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTCATCTTGCT
10407655 CCACTGCAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGAGATAAGATT
10407682 CGCTATTGTA
Statistics
Matches: 442, Mismatches: 74, Indels: 150
0.66 0.11 0.23
Matches are distributed among these distances:
43 35 0.08
44 180 0.41
45 11 0.02
46 8 0.02
47 1 0.00
48 8 0.02
49 10 0.02
50 156 0.35
51 33 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCT
Found at i:10407527 original size:50 final size:50
Alignment explanation
Indices: 10407468--10407721 Score: 202
Period size: 50 Copynumber: 5.3 Consensus size: 50
10407458 CATCTTGCTG
*
10407468 CACTGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCCGACC
1 CACTGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCTGACC
* * **
10407518 CACTGCAACTTCAAGG-G-TATAG---GA-T-TTGTAGCT-TTATCTTG-CTC
1 CACTGCAACTTCAGGGAGATA-AGATTCACTATTGTAGCTACAATC-TGAC-C
* *
10407562 CACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTACAATCCGACC
1 CACTGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCTGACC
* * *
10407612 CACTGCAACTTCAAGG-G-TATAG---GA-T-TTGTAGCTTC-ATCTTG-CTC
1 CACTGCAACTTCAGGGAGATA-AGATTCACTATTGTAGCTACAATC-TGAC-C
* * *
10407656 CACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAGCTTCAATCTAACC
1 CACTGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCTGACC
*
10407706 CATTGCAACTTCAGGG
1 CACTGCAACTTCAGGG
10407722 GTATAGGATT
Statistics
Matches: 159, Mismatches: 21, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
43 8 0.05
44 51 0.32
45 8 0.05
46 5 0.03
48 4 0.03
49 8 0.05
50 67 0.42
51 8 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (50 bp):
CACTGCAACTTCAGGGAGATAAGATTCACTATTGTAGCTACAATCTGACC
Found at i:10410619 original size:30 final size:30
Alignment explanation
Indices: 10410583--10410641 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
10410573 AACAAGTCAA
10410583 GAGTAAATCTG-AACTAAAAGAATTTTTCAG
1 GAGTAAATC-GAAACTAAAAGAATTTTTCAG
10410613 GAGTAAATCGAAACTAAAAGAATTTTTCA
1 GAGTAAATCGAAACTAAAAGAATTTTTCA
10410642 CAAAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (30 bp):
GAGTAAATCGAAACTAAAAGAATTTTTCAG
Found at i:10412195 original size:25 final size:25
Alignment explanation
Indices: 10412157--10412204 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10412147 CAAGCAAGTC
10412157 ATATTAGAAAGCTCAAAAAGAGCCT
1 ATATTAGAAAGCTCAAAAAGAGCCT
* * *
10412182 ATATTAGGACGCTCATAAAGAGC
1 ATATTAGAAAGCTCAAAAAGAGC
10412205 TGTGTTTGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.17, G:0.19, T:0.21
Consensus pattern (25 bp):
ATATTAGAAAGCTCAAAAAGAGCCT
Found at i:10415721 original size:29 final size:29
Alignment explanation
Indices: 10415657--10415713 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
10415647 TTGGTGATAT
*
10415657 TTTTCGAGTCCTCTTCCAAGCAAGACTTCA
1 TTTT-GAGTCCTCTTCCAAGCAAGACTCCA
10415687 TTTTGAGT-CTCTTCCAAGCAAGACTCC
1 TTTTGAGTCCTCTTCCAAGCAAGACTCC
10415714 TTTCTTGACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.69
29 4 0.15
30 4 0.15
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (29 bp):
TTTTGAGTCCTCTTCCAAGCAAGACTCCA
Found at i:10417631 original size:20 final size:20
Alignment explanation
Indices: 10417606--10417647 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
10417596 TTTTATTGTA
10417606 CACACTCGCGATATTTACTT
1 CACACTCGCGATATTTACTT
10417626 CACACTCGCGATATTTACTT
1 CACACTCGCGATATTTACTT
10417646 CA
1 CA
10417648 TTCTCTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (20 bp):
CACACTCGCGATATTTACTT
Found at i:10423054 original size:18 final size:18
Alignment explanation
Indices: 10423022--10423059 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10423012 TACAATATAG
10423022 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
10423041 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
10423058 TA
1 TA
10423060 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:10432875 original size:41 final size:41
Alignment explanation
Indices: 10432778--10433080 Score: 410
Period size: 41 Copynumber: 7.4 Consensus size: 41
10432768 GTTCTATGAC
* * *
10432778 TTTTAGCGGTGTTTTACCAAAAGCGTCGCTAATGCTCTGGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCT-GGT
* *
10432820 TTTTAGCGGCGTTTTACCGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
* * * *
10432861 TTTTAGCAGTGTTTTACCGAAGGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
*
10432902 TTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
* *
10432943 TTTTAGCGGTGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
* * * * *
10432984 TTTTAGCGGTGTTTTACCTAAAGCGTCACTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
* *
10433025 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATC-GGT
1 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
*
10433065 TTTTAGCTGCGTTTTA
1 TTTTAGCGGCGTTTTA
10433081 GTAAAAAACG
Statistics
Matches: 238, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 18 0.08
41 186 0.78
42 34 0.14
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
Found at i:10439566 original size:21 final size:21
Alignment explanation
Indices: 10439542--10439582 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10439532 AAATTTAACA
*
10439542 TCAATTTAATCCATTTCATAC
1 TCAATTTAATCCAATTCATAC
*
10439563 TCAATTTAATTCAATTCATA
1 TCAATTTAATCCAATTCATA
10439583 TCCTAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (21 bp):
TCAATTTAATCCAATTCATAC
Found at i:10448712 original size:24 final size:24
Alignment explanation
Indices: 10448685--10448745 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
10448675 GAAGAGCTAA
10448685 AACAGGAAGCTCACTA-AACCATAT
1 AACAGGAAGCTCACTAGAA-CATAT
*
10448709 AACAGGAAGCTCGCTAGAACATAT
1 AACAGGAAGCTCACTAGAACATAT
*
10448733 AATAGGAAGCTCA
1 AACAGGAAGCTCA
10448746 AAACGACTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 31 0.94
25 2 0.06
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.16
Consensus pattern (24 bp):
AACAGGAAGCTCACTAGAACATAT
Found at i:10451163 original size:12 final size:12
Alignment explanation
Indices: 10451146--10451170 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10451136 ACCATTGTAG
10451146 TCATCTTTTCCA
1 TCATCTTTTCCA
10451158 TCATCTTTTCCA
1 TCATCTTTTCCA
10451170 T
1 T
10451171 TTGTTCCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TCATCTTTTCCA
Found at i:10453222 original size:22 final size:23
Alignment explanation
Indices: 10453197--10453240 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10453187 AAAAAACAAT
*
10453197 AAAGTCAAA-TGAATCATAAAAA
1 AAAGTCAAATTAAATCATAAAAA
*
10453219 AAAGTGAAATTAAATCATAAAA
1 AAAGTCAAATTAAATCATAAAA
10453241 CATTGCGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (23 bp):
AAAGTCAAATTAAATCATAAAAA
Found at i:10457531 original size:43 final size:42
Alignment explanation
Indices: 10457477--10457620 Score: 123
Period size: 43 Copynumber: 3.4 Consensus size: 42
10457467 GCCAACGTCT
* *
10457477 CAGACATGGTCTTACATGCTATCACATATCGATGCCACTATCA
1 CAGACAGGGTCTTACATGCAATCACATATCGATGCCA-TATCA
* * * * * * *
10457520 CAGATAGGGTCTTACACG-AATTAAATA-CGATGTCGATGTCC
1 CAGACAGGGTCTTACATGCAATCACATATCGATG-CCATATCA
* * *
10457561 CAGACATGGTCTTACATGCAATCACATATCGATGCCAACATCC
1 CAGACAGGGTCTTACATGCAATCACATATCGATGCC-ATATCA
10457604 CAGAC-GTGGTCTTACAT
1 CAGACAG-GGTCTTACAT
10457621 AAGAACACAT
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 23 0.29
42 16 0.21
43 39 0.50
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
CAGACAGGGTCTTACATGCAATCACATATCGATGCCATATCA
Found at i:10463061 original size:56 final size:56
Alignment explanation
Indices: 10463004--10463323 Score: 435
Period size: 56 Copynumber: 5.7 Consensus size: 56
10462994 CATACAGGGT
** * * *
10463004 CTTACTCTTACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
* * * * *
10463060 CTTACTCACACTCATATATCA-AAGTCACATATCGATGTCAATGTATGAAACGTAGA
1 CTTACTCGCACACATATATCAGAA-TCACATATCGATGCCAACGTATGAAACGTGGA
* *
10463116 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATGAAATGTGGA
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
* * * * * *
10463172 CTTACTCGCACACATATATCAGAATCACATATCAATGCTAATGTATTAAATGCGGA
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
* *
10463228 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTACGAAACGTGGA
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
*
10463284 CTTACTCGCACACATATATCGGAATCACATATCGATGCCA
1 CTTACTCGCACACATATATCAGAATCACATATCGATGCCA
10463324 CATATACTTC
Statistics
Matches: 230, Mismatches: 32, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
55 2 0.01
56 227 0.99
57 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
CTTACTCGCACACATATATCAGAATCACATATCGATGCCAACGTATGAAACGTGGA
Found at i:10465990 original size:7 final size:7
Alignment explanation
Indices: 10465978--10466010 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
10465968 ATTCTTTATC
10465978 AAAAAGA
1 AAAAAGA
10465985 AAAAAG-
1 AAAAAGA
10465991 AAAAAGA
1 AAAAAGA
10465998 AAAAAGCA
1 AAAAAG-A
10466006 AAAAA
1 AAAAA
10466011 AACACTTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 12 0.50
8 6 0.25
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:10465994 original size:13 final size:14
Alignment explanation
Indices: 10465977--10466009 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
10465967 CATTCTTTAT
10465977 CAAAAAGAAAAAAG
1 CAAAAAGAAAAAAG
10465991 -AAAAAGAAAAAAG
1 CAAAAAGAAAAAAG
10466004 CAAAAA
1 CAAAAA
10466010 AAACACTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (14 bp):
CAAAAAGAAAAAAG
Found at i:10466448 original size:152 final size:148
Alignment explanation
Indices: 10466151--10466449 Score: 406
Period size: 152 Copynumber: 2.0 Consensus size: 148
10466141 GTTTTCTTTG
* *
10466151 AAAAATTTACTACTTTTCTTAAAAATCAAAGCTTTATTTCAAAATAGTTGAAAAAGATCAAAACT
1 AAAAATTCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACT
10466216 TTACTTTAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAAAATTATTTTTAAAAATCTAAAC
66 TTACTTTAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAAAATTATTTTTAAAAATCTAAAC
*
10466281 TCTGTTTCTGTTTTTTTGAAA
131 TC---TTCTGCTTTTTTGAAA
* * ** *
10466302 AAAAATATCACTATTTTTCTTAAAAATCAAAACTTTCTTTTGAAATAGTTGAAAAAGATTAAAAC
1 AAAAAT-TCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAAC
*
10466367 TTT-GTTTCAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAATAAATTTTTATTTTTAAAAA
65 TTTACTTT-AAAATTTTAAACTTTTCCTTTAAAATGACT-AAAAA-AAA---TTATTTTTAAAAA
10466431 TCTAAACTC-TCT-CTTTTTT
124 TCTAAACTCTTCTGCTTTTTT
10466450 TTAAAAGAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
151 9 0.07
152 90 0.68
153 8 0.06
154 3 0.02
157 22 0.17
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (148 bp):
AAAAATTCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAAGATCAAAACT
TTACTTTAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAAAATTATTTTTAAAAATCTAAAC
TCTTCTGCTTTTTTGAAA
Found at i:10466803 original size:22 final size:21
Alignment explanation
Indices: 10466775--10466826 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
10466765 GTAAAAAAAG
10466775 ATAATAATGATATTTAATAAT-A
1 ATAATAATG-TA-TTAATAATAA
*
10466797 ATAATAATTGTATTAATGATAA
1 ATAATAA-TGTATTAATAATAA
10466819 ATAATAAT
1 ATAATAAT
10466827 AATTTGGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.30
22 17 0.63
23 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
ATAATAATGTATTAATAATAA
Found at i:10471063 original size:46 final size:46
Alignment explanation
Indices: 10470979--10471147 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
10470969 GGTCAGGTGT
*
10470979 CGATGCCATGTCCTAGACATTGTCTTACACTGA-C-ACATCTCGTA-GC
1 CGATGCCATGTCCCAGACA-TGTCTTACACT-ACCTACATCTCG-AGGC
*
10471025 CGATG-CATGTCCCAGTCATGTCTTACACTACCTTACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTACC-TACATCTCGAGGC
* * * * * *
10471071 AGAAG-CATGTCCCGGACATGTCTTACACTAGCACT-CGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTA-C-CTACATCTCGAGGC
10471117 CGATGCCATGTCCCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACATGTCTTACACTA
10471148 GCTCACACAA
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 12 0.12
45 12 0.12
46 52 0.50
47 26 0.25
48 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTACCTACATCTCGAGGC
Found at i:10471288 original size:40 final size:40
Alignment explanation
Indices: 10471244--10471323 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
10471234 CGGACAAACA
10471244 TACAAACATTAAACTAAAATACGGGCCATAAAATTTCATT
1 TACAAACATTAAACTAAAATACGGGCCATAAAATTTCATT
*
10471284 TACAAATATTAAACTAAAATACGGGCCATAAAATTTCATT
1 TACAAACATTAAACTAAAATACGGGCCATAAAATTTCATT
10471324 CATATTTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.29
Consensus pattern (40 bp):
TACAAACATTAAACTAAAATACGGGCCATAAAATTTCATT
Found at i:10477021 original size:12 final size:12
Alignment explanation
Indices: 10477004--10477029 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10476994 CTTGGTCACA
10477004 CTCGGGTCGGGT
1 CTCGGGTCGGGT
10477016 CTCGGGTCGGGT
1 CTCGGGTCGGGT
10477028 CT
1 CT
10477030 GGTCTCAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.27, G:0.46, T:0.27
Consensus pattern (12 bp):
CTCGGGTCGGGT
Found at i:10477046 original size:17 final size:17
Alignment explanation
Indices: 10477005--10477046 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
10476995 TTGGTCACAC
* *
10477005 TCGGGTCGGGTCTCGGG
1 TCGGGTCTGGTCTCAGG
10477022 TCGGGTCTGGTCTCAGG
1 TCGGGTCTGGTCTCAGG
10477039 TCGGGTCT
1 TCGGGTCT
10477047 CTGGTCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.02, C:0.24, G:0.45, T:0.29
Consensus pattern (17 bp):
TCGGGTCTGGTCTCAGG
Found at i:10478314 original size:179 final size:178
Alignment explanation
Indices: 10478009--10478568 Score: 734
Period size: 179 Copynumber: 3.1 Consensus size: 178
10477999 AAGTAGCCCC
* * * * * *
10478009 ACTGCAACTTCAG-GAAGATAA-GACTTGTAGCTTCGATTTACTCCAATGTAATTTCAGAGTGAT
1 ACTGTAACTTCAGAG-AGATAAGGA-TTGTAGCTTCGATATGCTCCAATGTAATTTCGGA-AGAA
* * * * *
10478072 GAGATTTGTAGTTTCGATCTACTCCACTGGAGCTTAAAGGAGATAAGAATTGATAATTTCAACTT
63 GAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTT
* * * * * *
10478137 GTTCCACTGCAACTTCAAGGAGAAAAGGTTTATGTATTTTTATCCTGCTTT
128 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
*
10478188 ACTATAACTTCAGAGAGATAAGGATTGTAGCTTCGATATGCTCCAATGTAATTTCTGGAAGAAGA
1 ACTGTAACTTCAGAGAGATAAGGATTGTAGCTTCGATATGCTCCAATGTAATTTC-GGAAGAAGA
10478253 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGC
65 GATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGC
* *
10478318 TCCACTACAACTTCAGGGAGATAAGGTTCGTGTATTTTTATCCTACTCT
130 TCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
* * * * * *
10478367 ATTGTAGCTTCAGAGAGATAAAGATTGTGGCTTCGATCTGTTCCAATGTAATTTCAAGG-AGAAG
1 ACTGTAACTTCAGAGAGATAAGGATTGTAGCTTCGATATGCTCCAATGTAATTTC--GGAAGAAG
* * * *
10478431 AGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAGGAGATAAGAATTGGT-ATTTCAACCTG
64 AGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTG
*
10478495 CTCCACTGTAACTTCAGGGAGATAAGGTTTGTGTA-TTTTATCCTACTCT
129 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
* *
10478544 ACTGCAAGTTCAGAGAGATAAGGAT
1 ACTGTAACTTCAGAGAGATAAGGAT
10478569 CGGTAATTTC
Statistics
Matches: 337, Mismatches: 40, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
177 34 0.10
178 42 0.12
179 254 0.75
180 7 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (178 bp):
ACTGTAACTTCAGAGAGATAAGGATTGTAGCTTCGATATGCTCCAATGTAATTTCGGAAGAAGAG
ATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTGGTAATTTCAACTTGCT
CCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTACTCT
Found at i:10478516 original size:88 final size:89
Alignment explanation
Indices: 10478226--10478516 Score: 252
Period size: 88 Copynumber: 3.3 Consensus size: 89
10478216 AGCTTCGATA
* * * * * *
10478226 TGCTCCAATGTAATTTCTGGAAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGG
1 TGCTCCAATGTAACTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAGG
*
10478291 AGATAAGAATTGGTAATTTCAACT
66 AGATAAGAATTGGTAATTTCAACC
* ** * * ** * * *
10478315 TGCTCCACTACAACTTCAGGGAGATA-AGGTTCGTGTA-TTTTTATCCTACTCTATTGTAGCTTC
1 TGCTCCAATGTAACTTCAGGGAGA-AGAGATT--TGTAGCTTCAAT-CTACTCTGTTGGAACTTC
*** * *
10478378 -AGAGAGATAA-AGATT-GTGGCTTCGATC
62 AAG-GAGATAAGA-ATTGGTAATTTCAACC
* * *
10478405 TGTTCCAATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAGG
1 TGCTCCAATGTAACTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAGG
10478470 AGATAAGAATTGGT-ATTTCAACC
66 AGATAAGAATTGGTAATTTCAACC
*
10478493 TGCTCCACTGTAACTTCAGGGAGA
1 TGCTCCAATGTAACTTCAGGGAGA
10478517 TAAGGTTTGT
Statistics
Matches: 149, Mismatches: 42, Indels: 23
0.70 0.20 0.11
Matches are distributed among these distances:
88 54 0.36
89 32 0.21
90 36 0.24
91 27 0.18
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (89 bp):
TGCTCCAATGTAACTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCTGTTGGAACTTCAAGG
AGATAAGAATTGGTAATTTCAACC
Found at i:10478556 original size:45 final size:44
Alignment explanation
Indices: 10478460--10478654 Score: 185
Period size: 45 Copynumber: 4.4 Consensus size: 44
10478450 ACTCTGTTGG
* * * *
10478460 AACTTCAAGGAGATAAGAATTGGTATTTCAACCTGCTCCACTGT
1 AACTTCAGGGAGATAAGGATTGGTATTTCAACCTGCTCTACTGC
* * * *
10478504 AACTTCAGGGAGATAAGGTTTGTGTATTTTATCCTACTCTACTGC
1 AACTTCAGGGAGATAAGGATTG-GTATTTCAACCTGCTCTACTGC
* * * *
10478549 AAGTTCAGAGAGATAAGGATCGGTAATTTCAACCTGCTCTACTAC
1 AACTTCAGGGAGATAAGGATTGGT-ATTTCAACCTGCTCTACTGC
* * ** * *
10478594 AACTTCAGGAAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGGT-ATTTCAACCTGCTCTACTGC
*
10478638 AACTTTAGGGAGATAAG
1 AACTTCAGGGAGATAAG
10478655 ATTCACCATA
Statistics
Matches: 120, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
44 54 0.45
45 66 0.55
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGATTGGTATTTCAACCTGCTCTACTGC
Found at i:10478598 original size:90 final size:89
Alignment explanation
Indices: 10478290--10478611 Score: 280
Period size: 90 Copynumber: 3.6 Consensus size: 89
10478280 GAACTTCAAG
* *
10478290 GAGATAAGAATTGGTAATTTCAACTTGCTCCACTACAACTTCAGGGAGATAAGGTTCGTGTATTT
1 GAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGTA-TT
*
10478355 TTATCCTACTCTATTGTAGCTTCAGA
65 TTATCCTACTCTATTGAAG-TTCAGA
*** * * * * ** * * * *
10478381 GAGATAA-AGATT-GTGGCTTCGATCTGTTCCAATGTAATTTCAAGGAGA-AGAGATTTGTAG-C
1 GAGATAAGA-ATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATA-AGGTTTGT-GTA
** * *
10478442 TTCAAT-CTACTCTGTTGGAACTTCA-A
63 TTTTATCCTACTCTATT-GAAGTTCAGA
**
10478468 GGAGATAAGAATTGGT-ATTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGGTTTGTGTATT
1 -GAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGTATT
*
10478532 TTATCCTACTCTACTGCAAGTTCAGA
65 TTATCCTACTCTATTG-AAGTTCAGA
* * * *
10478558 GAGATAAGGATCGGTAATTTCAACCTGCTCTACTACAACTTCAGGAAGATAAGG
1 GAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGG
10478612 CTGGTGGCTT
Statistics
Matches: 177, Mismatches: 41, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
87 2 0.01
88 60 0.34
89 38 0.21
90 66 0.37
91 11 0.06
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (89 bp):
GAGATAAGAATTGGTAATTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGTATTT
TATCCTACTCTATTGAAGTTCAGA
Found at i:10478845 original size:143 final size:143
Alignment explanation
Indices: 10478593--10478943 Score: 535
Period size: 143 Copynumber: 2.5 Consensus size: 143
10478583 TGCTCTACTA
* *
10478593 CAACTTCAGGAAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
* * *
10478658 CACCATAATTTGTAGCTTTAATCTGTTCCACTATAACGTTAGGGAAATGAGGTCCGCTATC-TTC
66 CACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTTAGGGAAATAAGATCCGCTATCATT-
10478722 AGTCTGCTCCGCTG
130 AGTCTGCTCCGCTG
*
10478736 CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCAACTGCAACTTTAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
* * * * *
10478801 CACCATAATTTTTAGCTTTAATCTGTTCCACTGCAA-GTTCAGGGAAATAATATTCGCTGTCATT
66 CACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTT-AGGGAAATAAGATCCGCTATCATT
10478865 AGTCTGCTCCGCTG
130 AGTCTGCTCCGCTG
* ** *
10478879 CAACTTCAGGGAGATAAGGCTTGTGGCTTCAATCTATTCCACTACAACTTTAGGGAGATAAGATT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
10478944 TGCCATGATG
Statistics
Matches: 190, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
142 3 0.02
143 185 0.97
144 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (143 bp):
CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
CACCATAATTTGTAGCTTTAATCTGTTCCACTACAACGTTAGGGAAATAAGATCCGCTATCATTA
GTCTGCTCCGCTG
Found at i:10479391 original size:46 final size:46
Alignment explanation
Indices: 10479340--10479536 Score: 263
Period size: 46 Copynumber: 4.3 Consensus size: 46
10479330 ACTTTGTGGT
* * *
10479340 TTCTTCTATCCACCCCACTACAACTCAAGGGTATATGATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAAGATTTGTATC
* *
10479386 ATCTTCAATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAAGATTTGTATC
* *
10479432 TTCTTCAATCCATCCCACTGCAACTCAGGGGTATAAGATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATAAGATTTGTATC
** *
10479478 TTCTTCAATCCATCCCACTGTAACT-TAGGGT-TACAGGATTTGTATC
1 TTCTTCAATCCATCCCACTACAACTCAAGGGTATA-A-GATTTGTATC
*
10479524 TTCTTTAATCCAT
1 TTCTTCAATCCAT
10479537 TGATCTGGGT
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
44 2 0.01
45 5 0.04
46 130 0.95
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTACAACTCAAGGGTATAAGATTTGTATC
Found at i:10480353 original size:6 final size:6
Alignment explanation
Indices: 10480344--10480401 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
10480334 TTGGCCTCTC
* * * *
10480344 CTTTTT C-TTTT CTTTTTT CTTTTT -TATTT CTTCTT CTTCTT CTTATT
1 CTTTTT CTTTTT C-TTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
10480391 C-TTTT CTTTTT
1 CTTTTT CTTTTT
10480402 TGGAAAACTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 13 0.30
6 25 0.58
7 5 0.12
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:10480377 original size:14 final size:12
Alignment explanation
Indices: 10480345--10480402 Score: 62
Period size: 12 Copynumber: 4.4 Consensus size: 12
10480335 TGGCCTCTCC
10480345 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
10480357 TTTTTCTTTTTT
1 TTTTTCTTTTCT
10480369 ATTTCTTCTTCTTCT
1 -TTT-TTCTT-TTCT
10480384 TCTTATTCTTTTCT
1 T-TT-TTCTTTTCT
10480398 TTTTT
1 TTTTT
10480403 GGAAAACTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 13 0.33
13 5 0.13
14 11 0.28
15 10 0.26
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:10480396 original size:23 final size:19
Alignment explanation
Indices: 10480345--10480402 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
10480335 TGGCCTCTCC
10480345 TTTTTCTTTTCTTTTTTCT
1 TTTTTCTTTTCTTTTTTCT
*
10480364 TTTTT-ATTTCTTCTTCTTCT
1 TTTTTCTTTTCTT-TT-TTCT
10480384 TCTTATTCTTTTCTTTTTT
1 T-TT-TTCTTTTCTTTTTT
10480403 GGAAAACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 5 0.16
21 4 0.12
22 4 0.12
23 6 0.19
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTTTCT
Found at i:10480994 original size:13 final size:13
Alignment explanation
Indices: 10480976--10481015 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10480966 AGAGTAATCG
10480976 CACACGGGCGTGT
1 CACACGGGCGTGT
* **
10480989 CACACGAGAATGT
1 CACACGGGCGTGT
10481002 CACACGGGCGTGT
1 CACACGGGCGTGT
10481015 C
1 C
10481016 CCTACAGAGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.33, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:10484830 original size:22 final size:23
Alignment explanation
Indices: 10484805--10484847 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
10484795 AAAGCCGAGG
10484805 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
10484827 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
10484848 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:10496644 original size:43 final size:43
Alignment explanation
Indices: 10496580--10496748 Score: 161
Period size: 43 Copynumber: 3.9 Consensus size: 43
10496570 CATAGGATTT
*
10496580 TCGATATGTG-TTCTCGTGTAAGACCACGTCTAGGACGTTGGCA
1 TCGATATGTGATT-TCGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
10496623 TCGATATGTGATTTC-TAGTAAGACCATGTTTGGGACATCGGCA
1 TCGATATGTGATTTCGT-GTAAGACCACGTCTGGGACGTTGGCA
10496666 TC-ATAATTGTGA-TTCGTGTAAGACC-CTGTCTGGGACAG-TGGCA
1 TCGAT-A-TGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * * *
10496709 TCGACATGTGATTACATGTAAGACCACGCCTGGGACGTTG
1 TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTG
10496749 ACATTGTACG
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
42 9 0.09
43 83 0.81
44 10 0.10
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:10499336 original size:19 final size:20
Alignment explanation
Indices: 10499312--10499356 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
10499302 TGGTGACATT
10499312 CAATGCATATG-ATGAAATG
1 CAATGCATATGCATGAAATG
10499331 CAATGCATATGCATGAAATG
1 CAATGCATATGCATGAAATG
10499351 -AATGCA
1 CAATGCA
10499357 AAAAGAGACG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.24
Consensus pattern (20 bp):
CAATGCATATGCATGAAATG
Found at i:10501323 original size:12 final size:12
Alignment explanation
Indices: 10501298--10501331 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10501288 ACAAGAACAA
*
10501298 ATAAATAAATAG
1 ATAAATAGATAG
*
10501310 ATAGATAGATAG
1 ATAAATAGATAG
10501322 ATAAATAGAT
1 ATAAATAGAT
10501332 TATAACAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (12 bp):
ATAAATAGATAG
Found at i:10508773 original size:46 final size:46
Alignment explanation
Indices: 10508684--10508854 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
10508674 GGGGTCAGGT
* *
10508684 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-C-ACATCTCGTA-
1 GCCGATGACATGTCCCAGACAT-GTCTTACACT-ACCTACGTCTCG-AG
10508730 GCCGATG-CATGTCCCAGACATGTCTTACACTACCTTACGTCTCGAG
1 GCCGATGACATGTCCCAGACATGTCTTACACTACC-TACGTCTCGAG
* * * *
10508776 GCCGAAG-CATGTCCTAGACATGTCTTACACTAGCACT-CGTCTCAAT
1 GCCGATGACATGTCCCAGACATGTCTTACACTA-C-CTACGTCTCGAG
*
10508822 GCTGATGACATGTCCCAGACATGTCTTACACTA
1 GCCGATGACATGTCCCAGACATGTCTTACACTA
10508855 GCTCACACAA
Statistics
Matches: 110, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 15 0.14
46 56 0.51
47 26 0.24
48 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGACATGTCCCAGACATGTCTTACACTACCTACGTCTCGAG
Found at i:10511614 original size:18 final size:18
Alignment explanation
Indices: 10511588--10511628 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10511578 TTTTTCAAAT
10511588 AATTA-AAATT-TTAAAAA
1 AATTATAAATTCTT-AAAA
*
10511605 AATTATAAATTCTTTAAA
1 AATTATAAATTCTTAAAA
10511623 AATTAT
1 AATTAT
10511629 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 14 0.67
19 2 0.10
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTATAAATTCTTAAAA
Found at i:10511636 original size:10 final size:10
Alignment explanation
Indices: 10511592--10511681 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 10
10511582 TCAAATAATT
10511592 AAAATT-TTA
1 AAAATTATTA
*
10511601 AAAA-AATTA
1 AAAATTATTA
* *
10511610 TAAATTCTTTA
1 AAAATT-ATTA
10511621 AAAATTATTA
1 AAAATTATTA
*
10511631 AGAATTA-TA
1 AAAATTATTA
10511640 AATAATTA-TA
1 AA-AATTATTA
*
10511650 AATAATCATTA
1 AA-AATTATTA
* *
10511661 CAAATT-TAA
1 AAAATTATTA
10511670 AAAATTATTA
1 AAAATTATTA
10511680 AA
1 AA
10511682 GCCATACATA
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
9 20 0.33
10 30 0.49
11 11 0.18
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (10 bp):
AAAATTATTA
Found at i:10512208 original size:16 final size:16
Alignment explanation
Indices: 10512189--10512242 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
10512179 TATTTATTTA
10512189 TTTATGGATTTTAATT
1 TTTATGGATTTTAATT
* *
10512205 TTTA-GAAATATTTATTT
1 TTTATG-GAT-TTTAATT
10512222 ATTTATGGATTTTAATT
1 -TTTATGGATTTTAATT
10512239 TTTA
1 TTTA
10512243 AATATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.03
16 10 0.33
17 12 0.40
18 6 0.20
19 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (16 bp):
TTTATGGATTTTAATT
Found at i:10512211 original size:38 final size:38
Alignment explanation
Indices: 10512162--10512251 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 38
10512152 GGTTTTTAAA
*
10512162 TAATTATTAGAAATTTTTATTTATTTATTTATGGATTT
1 TAATTTTTAGAAATTTTTATTTATTTATTTATGGATTT
10512200 TAATTTTTAGAAA----TATTTATTTATTTATGGATTT
1 TAATTTTTAGAAATTTTTATTTATTTATTTATGGATTT
10512234 TAATTTTTA-AATATTTTT
1 TAATTTTTAGAA-ATTTTT
10512252 TATATGAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
33 2 0.04
34 31 0.67
38 13 0.28
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (38 bp):
TAATTTTTAGAAATTTTTATTTATTTATTTATGGATTT
Found at i:10512239 original size:18 final size:18
Alignment explanation
Indices: 10512184--10512239 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
10512174 ATTTTTATTT
10512184 ATTTATTTATGGATTTTA
1 ATTTATTTATGGATTTTA
*
10512202 A-TT-TTTA-GAAATATTT-
1 ATTTATTTATG-GAT-TTTA
10512218 ATTTATTTATGGATTTTA
1 ATTTATTTATGGATTTTA
10512236 ATTT
1 ATTT
10512240 TTAAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.03
16 7 0.23
17 10 0.33
18 11 0.37
19 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (18 bp):
ATTTATTTATGGATTTTA
Found at i:10520439 original size:47 final size:47
Alignment explanation
Indices: 10520369--10520488 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
10520359 GCGAATGTCC
* *
10520369 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAAATAGGCTTCT
1 GAACTCGTTGAGTTGAGTTCGAGTTCGTGAAATGTAAATAGGCATCT
* *
10520416 GAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTTCGAGTTCGTGAAATGTAAATAGGCATCT
10520463 GAACTCGTTGAGTTGAG-TCTGAGTTC
1 GAACTCGTTGAGTTGAGTTC-GAGTTC
10520489 ACTTACGGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.03
47 66 0.97
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTTCGAGTTCGTGAAATGTAAATAGGCATCT
Found at i:10540156 original size:27 final size:27
Alignment explanation
Indices: 10540126--10540179 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10540116 AATCTCATAT
* * *
10540126 CTGTAGGCTAGTATTATTGAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
*
10540153 CTGTAGGGTAGAATTACTAAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
10540180 TTGGTTTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTAAAATACCC
Found at i:10540194 original size:27 final size:27
Alignment explanation
Indices: 10540164--10540560 Score: 160
Period size: 27 Copynumber: 14.7 Consensus size: 27
10540154 TGTAGGGTAG
*
10540164 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTACAA
**
10540191 AATTA-CTGAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTACAA
* * *
10540217 AATTACCAAAATA-CCATCGATTAGCAA
1 AATTACCAAAATACCCTTGGTTTA-CAA
* * **
10540244 AACTACCAAAATAACCTTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTACAA
* ** * ***
10540271 AATCACCAAAATACCCCAGATTTGTGA
1 AATTACCAAAATACCCTTGGTTTACAA
* * * *** **
10540298 AATTACCGAAATACTCTCGACCTGTAA
1 AATTACCAAAATACCCTTGGTTTACAA
* ** **
10540325 AATTACCGAAATA-CCTTCGACTTGTAA
1 AATTACCAAAATACCCTT-GGTTTACAA
* ** **
10540352 AATTACCAAAATA-CTTTCAATTTGTAA
1 AATTACCAAAATACCCTT-GGTTTACAA
* ** **
10540379 AATTACCAAAATACCCCTAATTTGGAA
1 AATTACCAAAATACCCTTGGTTTACAA
* * * **
10540406 AATTATCGAAATACCCTTGATTTGGAA
1 AATTACCAAAATACCCTTGGTTTACAA
* *
10540433 AATTA-CAGAAATACCCCTGATTTACAA
1 AATTACCA-AAATACCCTTGGTTTACAA
* *
10540460 AATTA-TAGAAATACCCTTGACTTT-CAAA
1 AATTACCA-AAATACCCTTG-GTTTAC-AA
* * *
10540488 AATTACAAAAATACCATTGGTTTGCAA
1 AATTACCAAAATACCCTTGGTTTACAA
* ** *
10540515 AATTACCGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGGTTTACAA
* *
10540542 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
10540561 TAGGGTGAAA
Statistics
Matches: 299, Mismatches: 61, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
26 33 0.11
27 236 0.79
28 29 0.10
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTACAA
Found at i:10540310 original size:54 final size:53
Alignment explanation
Indices: 10540189--10540557 Score: 224
Period size: 54 Copynumber: 6.8 Consensus size: 53
10540179 CTTGGTTTAC
* * * ** * * *
10540189 AAAATTACTG-AATACCCTTGGTTTACAAAATTACCAAAATACCATCGATTAGC
1 AAAATTACCGAAATAACCTTGATTTGTAAAATTACCAAAATACC-CCGATTTGT
* * * *
10540242 AAAACTACCAAAATAACCTTGGTTTGTAAAATCACCAAAATACCCCAGATTTGT
1 AAAATTACCGAAATAACCTTGATTTGTAAAATTACCAAAATACCCC-GATTTGT
* * ** * * *
10540296 GAAATTACCGAAAT-ACTCTCGACCTGTAAAATTACCGAAATACCTTCGACTTGT
1 AAAATTACCGAAATAAC-CTTGATTTGTAAAATTACCAAAATACC-CCGATTTGT
* * * * *
10540350 AAAATTACCAAAAT-ACTTTCAATTTGTAAAATTACCAAAATACCCCTAATTTGG
1 AAAATTACCGAAATAACCTT-GATTTGTAAAATTACCAAAATACCCC-GATTTGT
* * * **
10540404 AAAATTATCGAAATACCCTTGATTTGGAAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCGAAATAACCTTGATTTGTAAAATTACCA-AAATACCCC-GATTTGT
** * ** * ** * *
10540458 AAAATTATAGAAATACCCTTGACTTTCAAAAATTACAAAAATACCATTGGTTTGC
1 AAAATTACCGAAATAACCTTGA-TTTGTAAAATTACCAAAATACC-CCGATTTGT
* * * * *
10540513 AAAATTACCGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AAAATTACCGAAATAACCTTGATTTGTAAAATTACCAAAATACCC
10540558 TTGTAGGGTG
Statistics
Matches: 245, Mismatches: 60, Indels: 22
0.75 0.18 0.07
Matches are distributed among these distances:
53 14 0.06
54 185 0.76
55 45 0.18
56 1 0.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.29
Consensus pattern (53 bp):
AAAATTACCGAAATAACCTTGATTTGTAAAATTACCAAAATACCCCGATTTGT
Found at i:10540311 original size:81 final size:80
Alignment explanation
Indices: 10540215--10540393 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 80
10540205 CTTGGTTTAC
* **
10540215 AAAATTACCAAAATACCATCGA-TTAGCAAAACTACCAAAATAACCTT-GGTTTGTAAAATCACC
1 AAAATTACCAAAATACC-TCGACCT-GCAAAACTACCAAAAT-ACCTTCGACTTGTAAAATCACC
10540278 AAAATAC-CCCAGATTTGT
63 AAAATACTCCCA-ATTTGT
* * * * * *
10540296 GAAATTACCGAAATACTCTCGACCTGTAAAATTACCGAAATACCTTCGACTTGTAAAATTACCAA
1 AAAATTACCAAAATAC-CTCGACCTGCAAAACTACCAAAATACCTTCGACTTGTAAAATCACCAA
**
10540361 AATACTTTCAATTTGT
65 AATACTCCCAATTTGT
10540377 AAAATTACCAAAATACC
1 AAAATTACCAAAATACC
10540394 CCTAATTTGG
Statistics
Matches: 81, Mismatches: 13, Indels: 9
0.79 0.13 0.09
Matches are distributed among these distances:
80 6 0.07
81 71 0.88
82 4 0.05
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (80 bp):
AAAATTACCAAAATACCTCGACCTGCAAAACTACCAAAATACCTTCGACTTGTAAAATCACCAAA
ATACTCCCAATTTGT
Found at i:10540516 original size:55 final size:54
Alignment explanation
Indices: 10540377--10540533 Score: 188
Period size: 55 Copynumber: 2.9 Consensus size: 54
10540367 TTCAATTTGT
* * * * **
10540377 AAAATTACCAAAATACCCCTAATTTGGAAAATTATCGAAATACCCTTGATTTGG
1 AAAATTACAAAAATACCACTGATTTGCAAAATTATCGAAATACCCTTGATTTCA
* * * *
10540431 AAAATTACAGAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCA
1 AAAATTACAAAAATACCACTGATTTGCAAAATTATCGAAATACCCTTGA-TTTCA
* * *
10540486 AAAATTACAAAAATACCATTGGTTTGCAAAATTACCGAAATACCCTTG
1 AAAATTACAAAAATACCACTGATTTGCAAAATTATCGAAATACCCTTG
10540534 GTTTGTAGAT
Statistics
Matches: 87, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 43 0.49
55 44 0.51
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (54 bp):
AAAATTACAAAAATACCACTGATTTGCAAAATTATCGAAATACCCTTGATTTCA
Found at i:10540843 original size:41 final size:41
Alignment explanation
Indices: 10540802--10540960 Score: 239
Period size: 41 Copynumber: 3.9 Consensus size: 41
10540792 GAAGAAATTG
** *
10540802 AGGATCGCATGGTTGCTTGACGATTGTGGATCCACCGATTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
10540843 AGGATCGCATGGTTGCTTGACAATCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* * *
10540884 AGGATCACATGGTTTCTTAACGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
10540925 AGGATCGCATGGTT-CTTGACGACCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
10540961 GTGGCTTTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 21 0.19
41 87 0.81
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:10541143 original size:22 final size:22
Alignment explanation
Indices: 10541108--10541166 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
10541098 TATTCTGATC
* *
10541108 ATGGCTTTGCGCCAACCT-ACAT
1 ATGGCTCTGTGCCAACCTGA-AT
*
10541130 ATGGCTCTGTGCCAACCTGATT
1 ATGGCTCTGTGCCAACCTGAAT
*
10541152 ATGGCTGTGTGCCAA
1 ATGGCTCTGTGCCAA
10541167 ACATATATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (22 bp):
ATGGCTCTGTGCCAACCTGAAT
Found at i:10541412 original size:22 final size:22
Alignment explanation
Indices: 10541369--10541414 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
10541359 GTTGCTGCGA
*
10541369 TGTTTACGGCTATGTGCTGTCC
1 TGTTTAAGGCTATGTGCTGTCC
*
10541391 TGTTTAAGGCTATGTGTTGTCC
1 TGTTTAAGGCTATGTGCTGTCC
10541413 TG
1 TG
10541415 CCTACGGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.17, G:0.28, T:0.43
Consensus pattern (22 bp):
TGTTTAAGGCTATGTGCTGTCC
Found at i:10546085 original size:30 final size:29
Alignment explanation
Indices: 10546051--10546114 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
10546041 TTACCATACA
*
10546051 AGTCCAT-ATATT-TTATTTATTTCACATTTT
1 AGTCCATCAAATTATTATTT-TTTCA-A-TTT
*
10546081 AGTCCCTCAAATTATTATTTTTTCAATTT
1 AGTCCATCAAATTATTATTTTTTCAATTT
10546110 AGTCC
1 AGTCC
10546115 TAATTACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.27
30 7 0.23
31 9 0.30
32 6 0.20
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.52
Consensus pattern (29 bp):
AGTCCATCAAATTATTATTTTTTCAATTT
Found at i:10551447 original size:57 final size:58
Alignment explanation
Indices: 10551321--10551462 Score: 164
Period size: 57 Copynumber: 2.5 Consensus size: 58
10551311 CTCATTACAG
* * **
10551321 AAAGGATTTAGCCTGGACTGGTAATCCTGATCTAAGTCCTTTCAAGCATATGTTATCG
1 AAAGGATTTAGCCTGGACTGGTAATCCAGATCTAAGTCCTTTCAAGCATATGTCATAA
** * *
10551379 ACTGGATTTAGCCCGGACAGGTAATCCAGAT-TAAG-CTCTTT-AGAGCATATGTCATAA
1 AAAGGATTTAGCCTGGACTGGTAATCCAGATCTAAGTC-CTTTCA-AGCATATGTCATAA
*
10551436 AAAGGATTTAGCCTGAACTGGTAATCC
1 AAAGGATTTAGCCTGGACTGGTAATCC
10551463 TGTTGTATAC
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
56 2 0.03
57 41 0.59
58 26 0.38
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (58 bp):
AAAGGATTTAGCCTGGACTGGTAATCCAGATCTAAGTCCTTTCAAGCATATGTCATAA
Found at i:10552999 original size:49 final size:49
Alignment explanation
Indices: 10552894--10553022 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
10552884 CTTCGGGACT
* * * *
10552894 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
10552941 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
10552990 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
10553023 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:10556729 original size:21 final size:23
Alignment explanation
Indices: 10556699--10556751 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 23
10556689 CTCCCTACAA
10556699 ACAA-CAAATTCACAA-CATTTT
1 ACAACCAAATTCACAACCATTTT
* *
10556720 A-TACCAAATTCTCAACCATTTT
1 ACAACCAAATTCACAACCATTTT
10556742 ACAACCAAAT
1 ACAACCAAAT
10556752 CATACATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 11 0.42
22 7 0.27
23 7 0.27
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
ACAACCAAATTCACAACCATTTT
Found at i:10557633 original size:43 final size:43
Alignment explanation
Indices: 10557580--10557734 Score: 190
Period size: 43 Copynumber: 3.6 Consensus size: 43
10557570 TCGTACAATT
**
10557580 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACATAATCAAATATCGATG
* *
10557623 CC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAGTA-CGATG
1 CCAAC-GTCCCAGAC-GTGGTCTTACACATAATCAAATATCGATG
* * *
10557665 CCAACGTCCCAGACGTGGTCTTACACATAAATCATATGTCGATT
1 CCAACGTCCCAGACGTGGTCTTACACAT-AATCAAATATCGATG
*
10557709 CCAACGTCCTAGACGTGGTCTTACAC
1 CCAACGTCCCAGACGTGGTCTTACAC
10557735 GGTAACACAT
Statistics
Matches: 96, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.30
43 36 0.38
44 30 0.31
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACACATAATCAAATATCGATG
Found at i:10564367 original size:21 final size:23
Alignment explanation
Indices: 10564341--10564389 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
10564331 CTACAAGCAA
*
10564341 CAAATTCACAA-CATTTTA-TAC
1 CAAATTCACAACCATTTTACAAC
*
10564362 CAAATTCTCAACCATTTTACAAC
1 CAAATTCACAACCATTTTACAAC
10564385 CAAAT
1 CAAAT
10564390 CAGACATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 7 0.29
23 7 0.29
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.31
Consensus pattern (23 bp):
CAAATTCACAACCATTTTACAAC
Found at i:10565326 original size:44 final size:44
Alignment explanation
Indices: 10565217--10565425 Score: 210
Period size: 44 Copynumber: 4.8 Consensus size: 44
10565207 AGCTAGTACA
* ** *
10565217 ATGCCAACGTCCCA-ATCGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGA-CATGGTCTTACACATAAATCATAA-GTCG
* * *
10565260 ATACC-ACTGTCCCAGACGTGGTCTTACACATAAATCATACGTCG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACATAAATCATAAGTCG
* * *
10565304 ATGCCAAGGTCCAAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
* * ** **
10565348 ATGCCAATGTCCTAGATGTGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
10565392 ATGCCAACGTCCCAGACATGGTCTTACACGATAA
1 ATGCCAACGTCCCAGACATGGTCTTACAC-ATAA
10565426 CACATATCAG
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.01
43 23 0.17
44 108 0.78
45 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACATAAATCATAAGTCG
Found at i:10565369 original size:88 final size:87
Alignment explanation
Indices: 10565217--10565421 Score: 252
Period size: 88 Copynumber: 2.3 Consensus size: 87
10565207 AGCTAGTACA
* * * *
10565217 ATGCCAACGTCCCAA-TCGTGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGACGTGG
1 ATGCCAACGT-CCAAGACATGGTCTTACACGTAATCAAATATCGATACCAATGTCCCAGACGTGG
*
10565281 TCTTACACATAAATCATACGTCG
65 TCTTACACATAAATCATAAGTCG
* * * * *
10565304 ATGCCAAGGTCCAAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCTAGATGTG
1 ATGCCAACGTCCAAGACATGGTCTTACACGT-AATCA-AATATCGATACCAATGTCCCAGACGTG
**
10565368 GTCTTACATGTAAATCATAAGTCG
64 GTCTTACACATAAATCATAAGTCG
*
10565392 ATGCCAACGTCCCAGACATGGTCTTACACG
1 ATGCCAACGTCCAAGACATGGTCTTACACG
10565422 ATAACACATA
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
86 4 0.04
87 22 0.22
88 73 0.72
89 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (87 bp):
ATGCCAACGTCCAAGACATGGTCTTACACGTAATCAAATATCGATACCAATGTCCCAGACGTGGT
CTTACACATAAATCATAAGTCG
Found at i:10596047 original size:17 final size:16
Alignment explanation
Indices: 10596027--10596080 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
10596017 GAATTACAAC
10596027 AGAGAAAGAAACGAAAA
1 AGAGAAAGAAA-GAAAA
10596044 AGAG--AGAAAGAAAA
1 AGAGAAAGAAAGAAAA
*
10596058 AAAGGAAAGAAAGAAAA
1 AGA-GAAAGAAAGAAAA
10596075 AG-GAAA
1 AGAGAAA
10596081 AATTAGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.22
15 10 0.31
17 15 0.47
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAGAAAA
Found at i:10596074 original size:15 final size:15
Alignment explanation
Indices: 10596030--10596080 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
10596020 TTACAACAGA
10596030 GAAAGAAACGAAAAA-
1 GAAAGAAA-GAAAAAG
*
10596045 GAGAGAAAGAAAAAAAG
1 GAAAGAAAG--AAAAAG
10596062 GAAAGAAAGAAAAAG
1 GAAAGAAAGAAAAAG
10596077 GAAA
1 GAAA
10596081 AATTAGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
14 1 0.03
15 17 0.55
16 5 0.16
17 8 0.26
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAAG
Found at i:10596076 original size:23 final size:24
Alignment explanation
Indices: 10595991--10596082 Score: 55
Period size: 23 Copynumber: 3.9 Consensus size: 24
10595981 ATAAAACATA
* * *
10595991 AAAGAA-ATAAAAAGAAATAAAGT
1 AAAGAATAGAAAAAGAAAAAAAGG
* * * *
10596014 AAAGAATTACAACAGAGAAAGAAACG
1 AAAGAA-TAGAA-AAAGAAAAAAAGG
* *
10596040 AAA-AAGAGAGAAAGAAAAAAAGG
1 AAAGAATAGAAAAAGAAAAAAAGG
*
10596063 AAAGAA-AGAAAAAGGAAAAA
1 AAAGAATAGAAAAAGAAAAAA
10596083 TTAGGGTTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
23 31 0.60
24 4 0.08
25 5 0.10
26 12 0.23
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.05
Consensus pattern (24 bp):
AAAGAATAGAAAAAGAAAAAAAGG
Found at i:10596949 original size:44 final size:44
Alignment explanation
Indices: 10596866--10596952 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
10596856 TATTCAAGGA
* *
10596866 TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCACCATAAGTATCGTACTGT
* * **
10596910 TACTTCGACTTTGAGTCGATGAGGCACCATGTGTATCGTACTG
1 TACTTCGACCTTAAGTCGATGAGGCACCATAAGTATCGTACTG
10596953 CTATTGTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (44 bp):
TACTTCGACCTTAAGTCGATGAGGCACCATAAGTATCGTACTGT
Found at i:10605590 original size:17 final size:18
Alignment explanation
Indices: 10605561--10605599 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
10605551 CAGAAAATAT
10605561 TTTTTAAACTTTTCT-TTA
1 TTTTTAAACTTTT-TATTA
10605579 TTTTTAAA-TTTTTATTA
1 TTTTTAAACTTTTTATTA
10605596 TTTT
1 TTTT
10605600 CACTTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 1 0.05
17 11 0.55
18 8 0.40
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTAAACTTTTTATTA
Found at i:10613572 original size:57 final size:56
Alignment explanation
Indices: 10613472--10613583 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 56
10613462 TACCCGTATA
* * *
10613472 TGGCCCACTAGGCCCAATCTCTTTCATATGGCCCATTTGGCCCAATCACATTTATG
1 TGGCCCACTAGGCCCAATCACTTTCATATGGCCCACTAGGCCCAATCACATTTATG
* * *
10613528 TGGCCCATTAGGCCCAAATCACTTTTATATGGCCCACTAGGCCCAATCACTTTTAT
1 TGGCCCACTAGGCCC-AATCACTTTCATATGGCCCACTAGGCCCAATCACATTTAT
10613584 AGTCATGCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
56 14 0.29
57 35 0.71
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (56 bp):
TGGCCCACTAGGCCCAATCACTTTCATATGGCCCACTAGGCCCAATCACATTTATG
Found at i:10613584 original size:28 final size:28
Alignment explanation
Indices: 10613468--10613584 Score: 162
Period size: 28 Copynumber: 4.1 Consensus size: 28
10613458 CACATACCCG
*
10613468 TATATGGCCCACTAGGCCCAATCTCTTT
1 TATATGGCCCACTAGGCCCAATCACTTT
* * * *
10613496 CATATGGCCCATTTGGCCCAATCACATT
1 TATATGGCCCACTAGGCCCAATCACTTT
* *
10613524 TATGTGGCCCATTAGGCCCAAATCACTTT
1 TATATGGCCCACTAGGCCC-AATCACTTT
10613553 TATATGGCCCACTAGGCCCAATCACTTT
1 TATATGGCCCACTAGGCCCAATCACTTT
10613581 TATA
1 TATA
10613585 GTCATGCTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 52 0.68
29 25 0.32
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.31
Consensus pattern (28 bp):
TATATGGCCCACTAGGCCCAATCACTTT
Found at i:10622231 original size:27 final size:27
Alignment explanation
Indices: 10622200--10622377 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10622190 TAAATTGTAC
10622200 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
10622227 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10622253 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
10622281 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
10622309 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10622336 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
10622363 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10622378 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:10622314 original size:82 final size:81
Alignment explanation
Indices: 10622201--10622356 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10622191 AAATTGTACA
* *
10622201 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
10622265 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
10622282 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
10622347 TGCGAGTTGA
65 TGCGAATTGA
10622357 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10622368 original size:82 final size:81
Alignment explanation
Indices: 10622197--10622377 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
10622187 GATTAAATTG
* *
10622197 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
10622262 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
10622278 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
10622342 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
10622360 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
10622378 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:10633244 original size:16 final size:16
Alignment explanation
Indices: 10633223--10633259 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10633213 AAACTTTAGG
*
10633223 CTTTTCGGCATTTCGA
1 CTTTTCGACATTTCGA
*
10633239 CTTTTCGACATTTTGA
1 CTTTTCGACATTTCGA
10633255 CTTTT
1 CTTTT
10633260 ACCGATCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (16 bp):
CTTTTCGACATTTCGA
Found at i:10640592 original size:27 final size:29
Alignment explanation
Indices: 10640562--10640621 Score: 81
Period size: 27 Copynumber: 2.1 Consensus size: 29
10640552 TTTTATTTTT
10640562 ATTTCTAA-TTTTAGTTTTTTAC-ATTT-A
1 ATTTC-AATTTTTAGTTTTTTACTATTTGA
*
10640589 ATTTCAATTTTTATTTTTTTACTATTTGA
1 ATTTCAATTTTTAGTTTTTTACTATTTGA
10640618 ATTT
1 ATTT
10640622 AATAATTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 4 0.14
29 5 0.17
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (29 bp):
ATTTCAATTTTTAGTTTTTTACTATTTGA
Found at i:10641077 original size:17 final size:17
Alignment explanation
Indices: 10641052--10641084 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10641042 AGTATAATTA
10641052 AACAAAAGAAAATAAAG
1 AACAAAAGAAAATAAAG
*
10641069 AACAGAAGAAAATAAA
1 AACAAAAGAAAATAAA
10641085 ATAAAAGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (17 bp):
AACAAAAGAAAATAAAG
Found at i:10644992 original size:22 final size:23
Alignment explanation
Indices: 10644950--10645018 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 23
10644940 TATATAAAAA
10644950 ACAATTTAAAAATAAATAATAAT
1 ACAATTTAAAAATAAATAATAAT
* *
10644973 ACAATTTTAAATAATCAATATATTAAA
1 ACAA-TTTAAA-AAT-AA-ATAATAAT
*
10645000 ACAAATT-AAAATAAATAAT
1 ACAATTTAAAAATAAATAAT
10645019 GTACATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 4 0.11
23 6 0.16
24 9 0.24
25 5 0.13
26 4 0.11
27 10 0.26
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (23 bp):
ACAATTTAAAAATAAATAATAAT
Found at i:10646609 original size:44 final size:44
Alignment explanation
Indices: 10646536--10647081 Score: 467
Period size: 44 Copynumber: 12.7 Consensus size: 44
10646526 TCATTCCATC
* * * * * **
10646536 CCACTGCATCTTCAGGG-GTATAGGAATTGTTGCTTTGATCCACT
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTTAATCTGCT
* * * * * * *
10646580 CCACTACAACTTTAGGGAGATAAGAATTGTAACTTCAACCTGCC
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
10646624 CCACTGCAACTTCATGGG-GATAAGGTTTGTGGCTTTAATCTGCT
1 CCACTGCAACTTCA-GGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * * *
10646668 CCACTGCAACTTCAGGGAGATAAGAATTGTAACTTCAACCTGCC
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
10646712 CCACTGCAACTTCAGGGGGATAAGGTTTGTGGCTTTAATCTTCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
10646756 CCACTACAACTTCAGGGAGATAAGATTTGTTA--TTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTT-AATCTGCT
* * *
10646800 CCACTGCAACTTCAAGGAGATAAGGTTTGTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *
10646844 CCACTGCAACTTCTGGGAGATAAGATTTGCTATC-TTCATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCT
* * *
10646888 CCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
*
10646932 CCACTGCAACTTCAGGGAGAT-AG----G-A--TTT--GCT-CT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * ** *
10646965 CCACTACAACTTCAGGAAGATAAGACTTGTAATTTTAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * * * * *
10647009 CGACTACAACTTCAGGGAGATAAGGTTTATGGCTTCAATCTGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
10647053 CCACTGCAACTTTAGGGAGACAAGATTTG
1 CCACTGCAACTTCAGGGAGATAAGATTTG
10647082 CCATGGTGAT
Statistics
Matches: 400, Mismatches: 82, Indels: 40
0.77 0.16 0.08
Matches are distributed among these distances:
33 21 0.05
34 4 0.01
36 3 0.01
38 2 0.00
39 2 0.00
41 3 0.01
43 13 0.03
44 342 0.86
45 10 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
Found at i:10646685 original size:88 final size:87
Alignment explanation
Indices: 10646535--10646953 Score: 536
Period size: 88 Copynumber: 4.8 Consensus size: 87
10646525 CTCATTCCAT
* * * * ** * *
10646535 CCCACTGCATCTTCAGGGG-TATAGGAATTGTTGCTTTGATCCACTCCACTACAACTTTAGGGAG
1 CCCACTGCAACTTCAGGGGATA-AGG-TTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
10646599 ATAAGAATTGTAACTTCAACCTGC
64 ATAAGAATTGTAACTTCAACCTGC
10646623 CCCACTGCAACTTCATGGGGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 CCCACTGCAACTTCA-GGGGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
10646688 TAAGAATTGTAACTTCAACCTGC
65 TAAGAATTGTAACTTCAACCTGC
* *
10646711 CCCACTGCAACTTCAGGGGGATAAGGTTTGTGGCTTTAATCTTCTCCACTACAACTTCAGGGAGA
1 CCCACTGCAACTTCA-GGGGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * *
10646776 TAAGATTTGTTATTTCAACCTGC
65 TAAGAATTGTAACTTCAACCTGC
* * *
10646799 TCCACTGCAACTTCAAGGAGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCTGGGAGA
1 CCCACTGCAACTTC-AGGGGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
* * *
10646864 TAAGATTTGCTATCTTC-ATCTGC
65 TAAGAATTG-TAACTTCAACCTGC
* * ** **
10646887 TCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 CCCACTGCAACTTCAGG-GGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGA
10646952 TA
65 TA
10646954 GGATTTGCTC
Statistics
Matches: 298, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
87 3 0.01
88 281 0.94
89 12 0.04
90 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
CCCACTGCAACTTCAGGGGATAAGGTTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT
AAGAATTGTAACTTCAACCTGC
Found at i:10647019 original size:77 final size:77
Alignment explanation
Indices: 10646886--10647030 Score: 245
Period size: 77 Copynumber: 1.9 Consensus size: 77
10646876 TCTTCATCTG
* * *
10646886 CTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTACAACTTCAGGAAGATAAGACTTGTAACTTTAATATGCTCCACTACAACTTCAGGGAG
10646951 ATAGGATTTGCT
66 ATAGGATTTGCT
* *
10646963 CTCCACTACAACTTCAGGAAGATAAGACTTGTAATTTTAATATGCTCGACTACAACTTCAGGGAG
1 CTCCACTACAACTTCAGGAAGATAAGACTTGTAACTTTAATATGCTCCACTACAACTTCAGGGAG
10647028 ATA
66 ATA
10647031 AGGTTTATGG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (77 bp):
CTCCACTACAACTTCAGGAAGATAAGACTTGTAACTTTAATATGCTCCACTACAACTTCAGGGAG
ATAGGATTTGCT
Found at i:10647056 original size:121 final size:121
Alignment explanation
Indices: 10646842--10647082 Score: 286
Period size: 121 Copynumber: 2.0 Consensus size: 121
10646832 CTTTAATCTG
* * * * * * *
10646842 CTCCACTGCAACTTCTGGGAGATAAGATTTGCTATCTTCATCTGCTCCACTGCAACTTCAGGAAG
1 CTCCACTACAACTTCAGGAAGATAAGACTTGCTATCTTAATATGCTCCACTACAACTTCAGGAAG
* * * * *
10646907 ATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTTGCT
66 ATAAGACTTATAACTTCAATCTGATCCACTGCAACTTCAGGGAGACAAGATTTGCT
* * *
10646963 CTCCACTACAACTTCAGGAAGATAAGACTTG-TAATTTTAATATGCTCGACTACAACTTCAGGGA
1 CTCCACTACAACTTCAGGAAGATAAGACTTGCT-ATCTTAATATGCTCCACTACAACTTCAGGAA
** ** *
10647027 GATAAGGTTTATGGCTTCAATCTGATCCACTGCAACTTTAGGGAGACAAGATTTGC
65 GATAAGACTTATAACTTCAATCTGATCCACTGCAACTTCAGGGAGACAAGATTTGC
10647083 CATGGTGATT
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
120 1 0.01
121 98 0.99
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (121 bp):
CTCCACTACAACTTCAGGAAGATAAGACTTGCTATCTTAATATGCTCCACTACAACTTCAGGAAG
ATAAGACTTATAACTTCAATCTGATCCACTGCAACTTCAGGGAGACAAGATTTGCT
Found at i:10655126 original size:27 final size:27
Alignment explanation
Indices: 10655095--10655272 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
10655085 TAAATTGTAC
10655095 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
10655122 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10655148 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
10655176 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
10655204 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
10655231 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
10655258 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10655273 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:10655210 original size:82 final size:81
Alignment explanation
Indices: 10655096--10655251 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
10655086 AAATTGTACA
* * *
10655096 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
10655160 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
10655177 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
10655242 TGCGAGTTGA
65 TGCGAATTGA
10655252 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10655263 original size:82 final size:81
Alignment explanation
Indices: 10655092--10655272 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
10655082 GATTAAATTG
* * *
10655092 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
10655157 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
10655173 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
10655237 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
10655255 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
10655273 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:10663189 original size:27 final size:27
Alignment explanation
Indices: 10663158--10663335 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10663148 TAAATTGTAC
10663158 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
10663185 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10663211 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
10663239 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
10663267 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10663294 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
10663321 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10663336 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:10663272 original size:82 final size:81
Alignment explanation
Indices: 10663159--10663314 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10663149 AAATTGTACA
* *
10663159 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
10663223 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
10663240 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
10663305 TGCGAGTTGA
65 TGCGAATTGA
10663315 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:10663326 original size:82 final size:81
Alignment explanation
Indices: 10663155--10663335 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
10663145 GATTAAATTG
* *
10663155 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
10663220 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
10663236 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
10663300 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
10663318 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
10663336 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:10679547 original size:39 final size:40
Alignment explanation
Indices: 10679343--10679565 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
10679333 TTGAATGCTG
* * * * * *
10679343 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
10679383 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
10679423 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
10679463 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
10679503 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
10679542 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
10679566 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:10679585 original size:79 final size:80
Alignment explanation
Indices: 10679418--10679600 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
10679408 GTGCGAGATA
* * *
10679418 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
10679483 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
10679498 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
10679562 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
10679577 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
10679601 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:10687337 original size:40 final size:39
Alignment explanation
Indices: 10687306--10687595 Score: 339
Period size: 40 Copynumber: 7.3 Consensus size: 39
10687296 GGACTAAGAT
* *
10687306 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
10687346 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
10687386 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
10687426 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* *
10687466 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
10687506 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
10687546 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
10687585 CCGAAGGCATT
1 CCGAAGGCATT
10687596 TGAACGAGGA
Statistics
Matches: 233, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
39 33 0.14
40 197 0.85
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:10687390 original size:80 final size:79
Alignment explanation
Indices: 10687253--10687595 Score: 388
Period size: 80 Copynumber: 4.3 Consensus size: 79
10687243 TTGAATGCTG
* * * * * **
10687253 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGT-TATAAATCCGGGTTAAG-TCCCGAAGGCAT
10687316 TTGTGCGAGATAC-AAA
63 TTGTGCGAGATACTAAA
* * * * * *
10687332 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATT
10687397 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
*
10687413 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
* *
10687478 GTGCGAGTTATTAAA
65 GTGCGAGATACTAAA
* *
10687493 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-ATAAATCCGGGTTAAGTCCCGAAGGCATTT
* *
10687557 GTGTGAGTTACTAAA
65 GTGCGAGATACTAAA
* * *
10687572 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
10687596 TGAACGAGGA
Statistics
Matches: 229, Mismatches: 28, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
79 38 0.17
80 178 0.78
81 13 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:10690425 original size:32 final size:32
Alignment explanation
Indices: 10690384--10690445 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
10690374 GTATTTATGC
*
10690384 AGCCTTCATGGCTCCCGTCCTCTGTTACAGGT
1 AGCCTTCATGGCTCACGTCCTCTGTTACAGGT
10690416 AGCCTTCATGGCTCACGTCCTCTGTTACAG
1 AGCCTTCATGGCTCACGTCCTCTGTTACAG
10690446 ATACCTACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.31
Consensus pattern (32 bp):
AGCCTTCATGGCTCACGTCCTCTGTTACAGGT
Found at i:10696537 original size:51 final size:51
Alignment explanation
Indices: 10696461--10696565 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
10696451 GATTCTCTAG
*
10696461 TTCTCTAAACCTCAGGTTTCTGTCAACAAGACCACAGCAAACCCCTCCTAT
1 TTCTCTAAACCTCAGGTTTCTGTCAACAAGACCACAGCAAAACCCTCCTAT
10696512 TTCTCTAAACCTCAGGTTTCTGTCAACAAGACCACAGCAAAACCCTCCTAT
1 TTCTCTAAACCTCAGGTTTCTGTCAACAAGACCACAGCAAAACCCTCCTAT
10696563 TTC
1 TTC
10696566 ATCTTTCTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.30, C:0.34, G:0.10, T:0.27
Consensus pattern (51 bp):
TTCTCTAAACCTCAGGTTTCTGTCAACAAGACCACAGCAAAACCCTCCTAT
Found at i:10698680 original size:32 final size:32
Alignment explanation
Indices: 10698639--10698704 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
10698629 GTGGTAACCC
* *
10698639 ATGGTAAGGGCATCGTCTCAAGAGATTCTTGT
1 ATGGTAAGGGCATCGACTCAAGAGATCCTTGT
10698671 ATGGTAAGGGCATCGACTCAAGAGATCCTTGT
1 ATGGTAAGGGCATCGACTCAAGAGATCCTTGT
10698703 AT
1 AT
10698705 CTCTTCCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (32 bp):
ATGGTAAGGGCATCGACTCAAGAGATCCTTGT
Done.