Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 102 of 170
Found at i:31798633 original size:34 final size:33
Alignment explanation
Indices: 31798593--31798851 Score: 172
Period size: 34 Copynumber: 7.5 Consensus size: 33
31798583 ATAACATAAC
*
31798593 AACTTACATAATACATAGCATACGTAACTTACAT
1 AACTTACATAATACATA-CATACATAACTTACAT
* *
31798627 AACTTACATAATACAAAACTTACATAACTTACAT
1 AACTTACATAATAC-ATACATACATAACTTACAT
*
31798661 AACCTACATAACCTACATA-ATACATTTAACTTACAT
1 AACTTACATAA--TACATACATACA--TAACTTACAT
31798697 AACTTACATAACTTACATA-ATACATAATAACTTAC--
1 AACTTACATAA--TACATACATAC---ATAACTTACAT
* * **
31798732 AACTTAAATAACATACATTACTTTGATAACTTACAT
1 AACTTACAT-A-ATACA-TACATACATAACTTACAT
* * * *
31798768 AACTTACATAATACACAACTTACATAGCTTACTT
1 AACTTACATAATACA-TACATACATAACTTACAT
*
31798802 AAC--ACATAACT-TATACACGTACATAACTTACAT
1 AACTTACATAA-TACATACA--TACATAACTTACAT
* *
31798835 AATTTACTTAATACATA
1 AACTTACATAATACATA
31798852 AATATATATC
Statistics
Matches: 178, Mismatches: 27, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
31 2 0.01
32 7 0.04
33 15 0.08
34 73 0.41
35 25 0.14
36 45 0.25
37 10 0.06
39 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (33 bp):
AACTTACATAATACATACATACATAACTTACAT
Found at i:31798647 original size:70 final size:68
Alignment explanation
Indices: 31798573--31798849 Score: 173
Period size: 71 Copynumber: 4.0 Consensus size: 68
31798563 AAACTTGCAT
*
31798573 AACTTACGTAA-TAACATAACAACTTACATAA-TACATAGCATAC-GTAACTTACATAACTTACA
1 AACTTACATAACTAACATAAC--C-TACATAACTACATA--ATACAGTAACTTACATAACTTACA
31798635 TAATACAA
61 TAATACAA
* *
31798643 AACTTACATAACTTACATAACCTACATAACCTACATAATACATTTAACTTACATAACTTACATAA
1 AACTTACATAACTAACATAACCTACATAA-CTACATAATACA-GTAACTTACATAACTTACATAA
*
31798708 CTTACAT
64 --TACAA
* * * *
31798715 AA--TACATAA-TAACTTACAACTTAAATAACATACAT--TACTTTGATAACTTACATAACTTAC
1 AACTTACATAACTAAC--ATAACCTACATAAC-TACATAATAC--AG-TAACTTACATAACTTAC
*
31798775 ATAATACAC
60 ATAATACAA
* * * * * *
31798784 AACTTACATAGCTTACTTAA-C-ACATAACT-TATACACGTACA-TAACTTACATAATTTACTTA
1 AACTTACATAACTAACATAACCTACATAACTACATA-A--TACAGTAACTTACATAACTTACATA
31798845 ATACA
63 ATACA
31798850 TAAATATATA
Statistics
Matches: 165, Mismatches: 21, Indels: 45
0.71 0.09 0.19
Matches are distributed among these distances:
66 2 0.01
67 24 0.15
68 17 0.10
69 13 0.08
70 47 0.28
71 53 0.32
72 9 0.05
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (68 bp):
AACTTACATAACTAACATAACCTACATAACTACATAATACAGTAACTTACATAACTTACATAATA
CAA
Found at i:31798653 original size:79 final size:77
Alignment explanation
Indices: 31798563--31798720 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 77
31798553 GCTTATATAT
* * * *
31798563 AAACTTGCATAACTTACGTAA-TAACATAACAACTTACATAATACA-TAGCATACGTAACTTACA
1 AAACTTACATAACTTACATAACT-ACATAAC--C-TACATAATACATTAACATACATAACTTACA
31798626 TAACTTACATAATACA
62 TAACTTACATAATACA
*
31798642 AAACTTACATAACTTACATAACCTACATAACCTACATAATACATTTAACTTACATAACTTACATA
1 AAACTTACATAACTTACATAA-CTACATAACCTACATAATACA-TTAACATACATAACTTACATA
31798707 ACTTACATAATACA
64 ACTTACATAATACA
31798721 TAATAACTTA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
77 11 0.16
78 1 0.01
79 50 0.71
80 7 0.10
81 1 0.01
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.29
Consensus pattern (77 bp):
AAACTTACATAACTTACATAACTACATAACCTACATAATACATTAACATACATAACTTACATAAC
TTACATAATACA
Found at i:31798798 original size:25 final size:25
Alignment explanation
Indices: 31798759--31798814 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
31798749 TTACTTTGAT
*
31798759 AACTTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAACACAC
* * *
31798784 AACTTACATAGCTTACTTAACACAT
1 AACTTACATAACTTACATAACACAC
31798809 AACTTA
1 AACTTA
31798815 TACACGTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (25 bp):
AACTTACATAACTTACATAACACAC
Found at i:31804826 original size:43 final size:41
Alignment explanation
Indices: 31804773--31805002 Score: 212
Period size: 43 Copynumber: 5.4 Consensus size: 41
31804763 AATCTCAAAA
*
31804773 TTAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACATTA-CT
1 TTAGCGGCGTTTTTT-T-AAAGCGCCGCTAAAGAACATTATCT
* * * * *
31804815 TTCCGCGGCGTTTGTGATGAAAGCGCCACTAAAGAACATGATCT
1 TT-AGCGGCGTTT-T-TTTAAAGCGCCGCTAAAGAACATTATCT
* *
31804859 ATAGCGGCGTTTTTTTACCAAGCACCGCTAAAGAACATTATCT
1 TTAGCGGCGTTTTTTTA--AAGCGCCGCTAAAGAACATTATCT
* *
31804902 TTAGCGGCGTCTTTATTTTAAGCGCCGCTAAAGAAAATGT-TCT
1 TTAGCGGCGT-TTT-TTTAAAGCGCCGCTAAAGAACAT-TATCT
* * * *
31804945 TTAGCGGCGTTTTTTGTTAAGTGCCACTAAAGAACATGATCT
1 TTAGCGGCGTTTTTT-TAAAGCGCCGCTAAAGAACATTATCT
*
31804987 TTAGCGGCATTTTTTT
1 TTAGCGGCGTTTTTTT
31805003 CTGTAAACGC
Statistics
Matches: 155, Mismatches: 22, Indels: 23
0.77 0.11 0.12
Matches are distributed among these distances:
41 5 0.03
42 41 0.26
43 97 0.63
44 8 0.05
45 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTTAAAGCGCCGCTAAAGAACATTATCT
Found at i:31806641 original size:20 final size:20
Alignment explanation
Indices: 31806605--31806648 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31806595 TTTTGAGAAA
*
31806605 TATTTTTACTGAGTTTAAAC
1 TATTTTTAATGAGTTTAAAC
*
31806625 TATTTTTAATGTA-TTTAAAG
1 TATTTTTAATG-AGTTTAAAC
31806645 TATT
1 TATT
31806649 ATAAATTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
TATTTTTAATGAGTTTAAAC
Found at i:31806823 original size:13 final size:13
Alignment explanation
Indices: 31806805--31806834 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
31806795 TGTTTTATTT
31806805 AAAATATTAAATA
1 AAAATATTAAATA
31806818 AAAATATTAAATA
1 AAAATATTAAATA
31806831 AAAA
1 AAAA
31806835 AAAGCCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAATATTAAATA
Found at i:31809418 original size:29 final size:31
Alignment explanation
Indices: 31809376--31809435 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
31809366 TCAAACACTT
*
31809376 GCTTGATCTATAGATATCCACAAAGGCGTCC
1 GCTTGATCTATAGATAGCCACAAAGGCGTCC
* *
31809407 GCTTGA-CT-TAGATAGCCATAGAGGCGTCC
1 GCTTGATCTATAGATAGCCACAAAGGCGTCC
31809436 ATATATCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 18 0.69
30 2 0.08
31 6 0.23
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (31 bp):
GCTTGATCTATAGATAGCCACAAAGGCGTCC
Found at i:31809768 original size:54 final size:53
Alignment explanation
Indices: 31809732--31809892 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 53
31809722 CTATGTATTA
31809732 TTCATTTCCCCATATGATGTCATAGCAAACAGCTAGGCCTTACACTATATGGTC
1 TTCATTTCCCCATATGATGTCATAGCAAAC-GCTAGGCCTTACACTATATGGTC
* * *
31809786 TTCATTTCCCCATATGATGCCATAACAAACGACTAGGGCTTACACTATATGGTC
1 TTCATTTCCCCATATGATGTCATAGCAAACG-CTAGGCCTTACACTATATGGTC
* * * * * *
31809840 TTTATTTCCCAATATAAAGTCATTGCAAATGGCTAGGCCTTACACTATATGGT
1 TTCATTTCCCCATATGATGTCATAGCAAA-CGCTAGGCCTTACACTATATGGT
31809893 ATTCGCTTAC
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 91 0.98
55 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (53 bp):
TTCATTTCCCCATATGATGTCATAGCAAACGCTAGGCCTTACACTATATGGTC
Found at i:31812303 original size:79 final size:81
Alignment explanation
Indices: 31812167--31812351 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
31812157 TTGAATGATG
*
31812167 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31812231 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
31812246 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31812308 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
31812326 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31812352 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:31812365 original size:40 final size:40
Alignment explanation
Indices: 31812168--31812351 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
31812158 TGAATGATGT
* * * *
31812168 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
31812208 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
31812248 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31812286 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31812327 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31812352 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31812373 original size:79 final size:79
Alignment explanation
Indices: 31812220--31812384 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
31812210 GGACTAAGAT
* **
31812220 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
31812285 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
31812299 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
31812362 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31812378 CCGAAGG
1 CCGAAGG
31812385 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31820336 original size:79 final size:81
Alignment explanation
Indices: 31820200--31820384 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
31820190 TTGAATGATG
*
31820200 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31820264 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
31820279 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31820341 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
31820359 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31820385 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:31820398 original size:40 final size:40
Alignment explanation
Indices: 31820201--31820384 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
31820191 TGAATGATGT
* * * *
31820201 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
31820241 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
31820281 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31820319 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
31820360 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31820385 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:31820406 original size:79 final size:79
Alignment explanation
Indices: 31820253--31820417 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
31820243 GGACTAAGAT
* **
31820253 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
31820318 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
31820332 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
31820395 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31820411 CCGAAGG
1 CCGAAGG
31820418 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31823615 original size:20 final size:20
Alignment explanation
Indices: 31823590--31823631 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
31823580 TTTCGAGGTT
* *
31823590 TATGTATAAAAAGAGCATTC
1 TATGTACAAAAAGAACATTC
31823610 TATGTACAAAAAGAACATTC
1 TATGTACAAAAAGAACATTC
31823630 TA
1 TA
31823632 AAAGTAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (20 bp):
TATGTACAAAAAGAACATTC
Found at i:31829289 original size:187 final size:187
Alignment explanation
Indices: 31828974--31829346 Score: 606
Period size: 187 Copynumber: 2.0 Consensus size: 187
31828964 TACCTCACAC
*
31828974 TACTGAGACACACGCCCGTGTCTCAGGCTATGTAGCCTTCGAACTCAAGACACACGGCTGTGTCC
1 TACTGAGACACACGCCCGTGTCTCAGGCTATGTAGCCTTCGAACTCAAGACACACGACTGTGTCC
* * *
31829039 CAGCCTGTGTTCTTACCTGTGTAACTCTTTAAGCAGGGTCACACGACAGTGTCACATGCTCGTGT
66 CAGCCTGTGTTCTTACATGTGTAACTCTCTAAGCAGGGTCACACGACAGTGTCACACGCTCGTGT
* *
31829104 GCCAGGCCGTGTAACTCTCTAAGTTGCCCCATACGCCCGTGTGCTAGGCCTTGTAAT
131 GCCAGGCCATATAACTCTCTAAGTTGCCCCATACGCCCGTGTGCTAGGCCTTGTAAT
* *
31829161 TACTGAGACACACGCCCGTGTCTCAGGCTGTGTAGCCTTCGAACT-AGGGACACACGACTGTGTC
1 TACTGAGACACACGCCCGTGTCTCAGGCTATGTAGCCTTCGAACTCA-AGACACACGACTGTGTC
* * *
31829225 CCAGCCTGTGTTCTTACATGTGTAACTCTCTAAGTAGGGTCACATGGTC-GTGTCACACGCTCGT
65 CCAGCCTGTGTTCTTACATGTGTAACTCTCTAAGCAGGGTCACA-CGACAGTGTCACACGCTCGT
*
31829289 GTGCCAGGCCATATAACTCTCTGAGTTGCCCCATACGCCCGTGTGCTAGGCCTTGTAA
129 GTGCCAGGCCATATAACTCTCTAAGTTGCCCCATACGCCCGTGTGCTAGGCCTTGTAA
31829347 CTCACTGACT
Statistics
Matches: 172, Mismatches: 12, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
186 1 0.01
187 169 0.98
188 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (187 bp):
TACTGAGACACACGCCCGTGTCTCAGGCTATGTAGCCTTCGAACTCAAGACACACGACTGTGTCC
CAGCCTGTGTTCTTACATGTGTAACTCTCTAAGCAGGGTCACACGACAGTGTCACACGCTCGTGT
GCCAGGCCATATAACTCTCTAAGTTGCCCCATACGCCCGTGTGCTAGGCCTTGTAAT
Found at i:31845056 original size:13 final size:13
Alignment explanation
Indices: 31845038--31845062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31845028 TAATTTATAT
31845038 GTGTGAAAATTTC
1 GTGTGAAAATTTC
31845051 GTGTGAAAATTT
1 GTGTGAAAATTT
31845063 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:31846292 original size:43 final size:43
Alignment explanation
Indices: 31846153--31846311 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
31846143 TATGTGATAT
*
31846153 CGTGTAAGACCACGTCTGGGACATTGGCATCGATT-TACGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATC-ATTATATGA-TTA
* * * *
31846197 CGTGTAAGACCATGTTTGGGACATTGACATC-GTATATGATTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCATTATATGATTA
* * *
31846239 CGTGTTAGACC-CTGTCTGGGACAGTGGCATCATTATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCATTATATGATTA
*
31846282 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
31846312 TGTATGAGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.30
43 38 0.40
44 29 0.30
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCATTATATGATTA
Found at i:31853867 original size:22 final size:22
Alignment explanation
Indices: 31853841--31853887 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
31853831 GTCTATGCAT
*
31853841 GAAGAATTAAATTAATTTGAAA
1 GAAGAATTAAATCAATTTGAAA
*
31853863 GAAGAATTAAATCAATTTTAAA
1 GAAGAATTAAATCAATTTGAAA
31853885 GAA
1 GAA
31853888 ATCAAGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.13, T:0.30
Consensus pattern (22 bp):
GAAGAATTAAATCAATTTGAAA
Found at i:31858288 original size:122 final size:122
Alignment explanation
Indices: 31858062--31858320 Score: 283
Period size: 122 Copynumber: 2.1 Consensus size: 122
31858052 CTACCGATAT
* * * * *
31858062 CCTCAGAGTTCTACCGCTACCTTGAGGACTTTTACCGCAACAAGTCAAAATAGTAGCTAAGGTTC
1 CCTCAGAGTTCTACCGATACCTTGAGGACTTGTACCGAAACAAGTCAAAATAGTAGCCAAAGTTC
* * * * * **
31858127 ATCCTCTCCCACATTTCTTCGGAAACTCTGGTGGCTTCTACCGATACGAGTTGAAAC
66 AGCATCTCCCACACTTCTTCGGAAACTCTGGTGGCTTCTACCAATACCAAATGAAAC
* ** *
31858184 CAC-CAGAGTTCTACTGATACCTTGAGGACTTGTATTGAAACAAGTCAAGATAGTAGCCAAAGTT
1 C-CTCAGAGTTCTACCGATACCTTGAGGACTTGTACCGAAACAAGTCAAAATAGTAGCCAAAGTT
* * *
31858248 CAGCATC-CCCTGCACTTCTATC-GATACTCTGATTGG-TTCTACCAATACCAAATGAAAC
65 CAGCATCTCCC-ACACTTCT-TCGGAAACTCTG-GTGGCTTCTACCAATACCAAATGAAAC
31858306 CCTCAGAGTTCTACC
1 CCTCAGAGTTCTACC
31858321 AATAAAAAGG
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
121 4 0.04
122 102 0.91
123 6 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (122 bp):
CCTCAGAGTTCTACCGATACCTTGAGGACTTGTACCGAAACAAGTCAAAATAGTAGCCAAAGTTC
AGCATCTCCCACACTTCTTCGGAAACTCTGGTGGCTTCTACCAATACCAAATGAAAC
Found at i:31860729 original size:20 final size:20
Alignment explanation
Indices: 31860700--31860742 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31860690 TTTCTATATA
*
31860700 ATTATACAATTTTATAAAAT
1 ATTATACAATTATATAAAAT
* *
31860720 ATTATTCAATTATATAAATT
1 ATTATACAATTATATAAAAT
31860740 ATT
1 ATT
31860743 GTAACATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTATACAATTATATAAAAT
Found at i:31861776 original size:15 final size:15
Alignment explanation
Indices: 31861726--31861776 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
31861716 TAATTTTATT
31861726 AAAACTATTTCTTAA
1 AAAACTATTTCTTAA
* *
31861741 AAAATTATATT-ATAA
1 AAAACTAT-TTCTTAA
31861756 CTAAAACTATTTCTTAA
1 --AAAACTATTTCTTAA
31861773 AAAA
1 AAAA
31861777 AGAATATTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 14 0.50
16 4 0.14
17 10 0.36
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAACTATTTCTTAA
Found at i:31861784 original size:33 final size:32
Alignment explanation
Indices: 31861725--31861790 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
31861715 GTAATTTTAT
** *
31861725 TAAAACTATTTCTTAAAAAATTATATTATAAC
1 TAAAACTATTTCTTAAAAAAGAATATTACAAC
31861757 TAAAACTATTTCTTAAAAAAAGAATATTACAAC
1 TAAAACTATTTCTT-AAAAAAGAATATTACAAC
31861790 T
1 T
31861791 TTTGTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (32 bp):
TAAAACTATTTCTTAAAAAAGAATATTACAAC
Found at i:31879638 original size:37 final size:37
Alignment explanation
Indices: 31879587--31879800 Score: 349
Period size: 37 Copynumber: 5.8 Consensus size: 37
31879577 TAGCTAGACT
31879587 ACCACTTATCACTTT-TCCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGT-CACTTGATCAGATAAGTGTA
* *
31879624 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
**
31879661 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
**
31879698 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
*
31879735 GCCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
31879772 ACCACTTATCACTTTGTCACTTGATCAGA
1 ACCACTTATCACTTTGTCACTTGATCAGA
31879801 AGTACTCAAA
Statistics
Matches: 168, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
37 167 0.99
38 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (37 bp):
ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTA
Found at i:31887213 original size:20 final size:20
Alignment explanation
Indices: 31887190--31887229 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31887180 TTTGGACAAA
31887190 GGACTAAATCATAATA-AACT
1 GGACTAAATCA-AATAGAACT
31887210 GGACTAAATCAAATAGAACT
1 GGACTAAATCAAATAGAACT
31887230 AAAAACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (20 bp):
GGACTAAATCAAATAGAACT
Found at i:31904361 original size:37 final size:36
Alignment explanation
Indices: 31904308--31904383 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
31904298 ATTCCCAAAA
*
31904308 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATT-AATTTAATAT
*
31904344 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
31904381 TAA
1 TAA
31904384 AGTGATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:31905193 original size:25 final size:25
Alignment explanation
Indices: 31905165--31905215 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
31905155 CTGAAGATCC
31905165 AAGGAATGCCTTGTGGTGAAAAACT
1 AAGGAATGCCTTGTGGTGAAAAACT
31905190 AAGGAATGCCTTGTGGTGAAAAACT
1 AAGGAATGCCTTGTGGTGAAAAACT
31905215 A
1 A
31905216 TGTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (25 bp):
AAGGAATGCCTTGTGGTGAAAAACT
Found at i:31916702 original size:23 final size:22
Alignment explanation
Indices: 31916659--31916702 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
31916649 TTCTAAGTAA
31916659 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
31916682 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
31916703 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:31916812 original size:45 final size:45
Alignment explanation
Indices: 31916748--31916835 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
31916738 ACAGATACTC
* * *
31916748 GGTGGATTCAGCACATAGCAATCACCTTATTAATTAATGATGTCT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGTCT
31916793 GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
31916836 TCGGTTCACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGTCT
Found at i:31916907 original size:51 final size:50
Alignment explanation
Indices: 31916837--31917031 Score: 214
Period size: 51 Copynumber: 3.9 Consensus size: 50
31916827 TAATGATGTT
* * * *
31916837 CGGTTCACATAGTAGCCTGCACATAGTACTATACATGTGACCATTATCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATC
* * * *
31916888 CGATACACGTAATAGCCTGCACATAGTACTACACACGTGATCGA-AACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATC
* * * * **
31916939 TGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TC
31916989 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
31917032 ACACTTTCAC
Statistics
Matches: 115, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 1 0.01
50 43 0.37
51 69 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATATCATC
Found at i:31917021 original size:101 final size:101
Alignment explanation
Indices: 31916844--31917028 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
31916834 GTTCGGTTCA
* **
31916844 CATAGTAGCCTGCACATAGTACTATACATGTGACCATTATCATCCGATACACGTAATAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCA-TATCATCCGATACACGTAATAGCCTGCA
31916909 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTACG
* *
31916946 CATAGTAGCCTGCACATAGTACTACACATGCAACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATATCA-TCCGATACACGTAATAGCCTGCA
31917010 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
31917029 CCAACACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 5 0.06
101 40 0.52
102 32 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATATCATCCGATACACGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTACG
Found at i:31917937 original size:30 final size:31
Alignment explanation
Indices: 31917898--31917957 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
31917888 GCAGGTGGGA
*
31917898 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
31917929 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
31917958 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:31918278 original size:9 final size:9
Alignment explanation
Indices: 31918261--31918291 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31918251 TCGAGTTGAT
31918261 TCGAATAAC
1 TCGAATAAC
*
31918270 TCGATTAAC
1 TCGAATAAC
31918279 TCGAATAAC
1 TCGAATAAC
31918288 TCGA
1 TCGA
31918292 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:31919982 original size:37 final size:37
Alignment explanation
Indices: 31919933--31920003 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
31919923 CAAAATCATA
31919933 TTATTTTAATAAT-TTAATATTAAATTTAAT-TTAATAC
1 TTATTTTAATAATATT-ATATT-AATTTAATATTAATAC
*
31919970 TTATCTTT-ATAATATTTTATTAATTTAATATTAA
1 TTAT-TTTAATAATATTATATTAATTTAATATTAA
31920004 AGTGATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
36 8 0.27
37 17 0.57
38 5 0.17
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (37 bp):
TTATTTTAATAATATTATATTAATTTAATATTAATAC
Found at i:31920197 original size:14 final size:14
Alignment explanation
Indices: 31920178--31920212 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
31920168 CCTGAATTCA
*
31920178 AGAGAAAGTTATAG
1 AGAGAAAATTATAG
31920192 AGAGAAAATTATAG
1 AGAGAAAATTATAG
31920206 AGAGAAA
1 AGAGAAA
31920213 TTACGTGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (14 bp):
AGAGAAAATTATAG
Found at i:31923576 original size:9 final size:9
Alignment explanation
Indices: 31923562--31923629 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
31923552 TTTTGGTTAA
31923562 AATTACCCG
1 AATTACCCG
31923571 AATTACCCG
1 AATTACCCG
*
31923580 AATTAACCG
1 AATTACCCG
*
31923589 AATTAACCG
1 AATTACCCG
31923598 AATTA-CCG
1 AATTACCCG
*
31923606 AAAAATACCCG
1 --AATTACCCG
31923617 AATTACCCG
1 AATTACCCG
31923626 AATT
1 AATT
31923630 TTTTTATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
8 3 0.06
9 43 0.81
10 4 0.08
11 3 0.06
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:31927715 original size:19 final size:18
Alignment explanation
Indices: 31927693--31927737 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
31927683 TCCTTTCTCC
*
31927693 CTTTCTTTTCTTTTTCTTT
1 CTTTCTTTTCTTTAT-TTT
*
31927712 CTTTTTTTTTCTTTATTTT
1 C-TTTCTTTTCTTTATTTT
31927731 CTTTCTT
1 CTTTCTT
31927738 AATTTGTATG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
CTTTCTTTTCTTTATTTT
Found at i:31935303 original size:7 final size:7
Alignment explanation
Indices: 31935293--31935401 Score: 62
Period size: 7 Copynumber: 15.4 Consensus size: 7
31935283 CCCCAACCCT
31935293 TAAACCA
1 TAAACCA
31935300 TAAACCA
1 TAAACCA
* *
31935307 TAATCCC
1 TAAACCA
31935314 TAAACCCA
1 TAAA-CCA
*
31935322 TAATCCA
1 TAAACCA
*
31935329 T-AACCT
1 TAAACCA
31935335 TAAA--A
1 TAAACCA
*
31935340 TAGTAACTCC
1 TA--AAC-CA
*
31935350 TAAACCT
1 TAAACCA
*
31935357 TAAACCC
1 TAAACCA
31935364 TAAACCA
1 TAAACCA
* *
31935371 TATACCC
1 TAAACCA
31935378 TAAACCA
1 TAAACCA
*
31935385 TAAACCC
1 TAAACCA
*
31935392 TAAACTA
1 TAAACCA
31935399 TAA
1 TAA
31935402 TGATAATTAA
Statistics
Matches: 76, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.03
6 4 0.05
7 60 0.79
8 8 0.11
10 2 0.03
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:31935317 original size:21 final size:20
Alignment explanation
Indices: 31935269--31935390 Score: 86
Period size: 21 Copynumber: 5.8 Consensus size: 20
31935259 GACCCCTGAC
* **
31935269 CCCTAAACCTTAAACCCCAA
1 CCCTAAACCATAAACCATAA
31935289 CCCTTAAACCATAAACCATAA
1 CCC-TAAACCATAAACCATAA
*
31935310 TCCCTAAACCCATAATCCATAA
1 -CCCTAAA-CCATAAACCATAA
* *
31935332 CCTTAAA--ATAGTAACTCCTAAA
1 CCCTAAACCATA--AAC-CAT-AA
* *
31935354 CCTTAAACCCTAAACCATATA
1 CCCTAAACCATAAACCATA-A
31935375 CCCTAAACCATAAACC
1 CCCTAAACCATAAACC
31935391 CTAAACTATA
Statistics
Matches: 81, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.04
20 6 0.07
21 43 0.53
22 27 0.33
24 2 0.02
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.20
Consensus pattern (20 bp):
CCCTAAACCATAAACCATAA
Found at i:31935365 original size:14 final size:14
Alignment explanation
Indices: 31935287--31935401 Score: 92
Period size: 14 Copynumber: 8.1 Consensus size: 14
31935277 CTTAAACCCC
31935287 AACCCTTAAACCATA
1 AACCC-TAAACCATA
* * *
31935302 AACCATAATCCCTA
1 AACCCTAAACCATA
*
31935316 AACCCATAATCCAT-
1 AACCC-TAAACCATA
*
31935330 AACCTTAAA--ATA
1 AACCCTAAACCATA
*
31935342 GTAACTCCTAAACCTTA
1 --AAC-CCTAAACCATA
31935359 AACCCTAAACCATA
1 AACCCTAAACCATA
*
31935373 TACCCTAAACCATA
1 AACCCTAAACCATA
*
31935387 AACCCTAAACTATA
1 AACCCTAAACCATA
31935401 A
1 A
31935402 TGATAATTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
11 2 0.03
13 3 0.04
14 54 0.68
15 19 0.24
17 2 0.03
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (14 bp):
AACCCTAAACCATA
Found at i:31935853 original size:40 final size:40
Alignment explanation
Indices: 31935707--31935853 Score: 163
Period size: 40 Copynumber: 3.7 Consensus size: 40
31935697 AATATTTTTT
* * * * * * *
31935707 GCGGCGTTTTTGATAAAGCGCCACTAAAGCTCAATCTATA
1 GCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCTTTA
*
31935747 GCGGCGTTTTTCAAAAAGCGCCG-TAATGCTCGAT-TTATA
1 GCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCTT-TA
* *
31935786 GCGGCGTTTTTCAAAAAGAACCTCTAATGCTCGATCTTTA
1 GCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCTTTA
* *
31935826 GCAGCGTTTTTCGAAAAGCACCGCTAAT
1 GCGGCGTTTTTCAAAAAGCACCGCTAAT
31935854 ACCACTAAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 31 0.34
40 57 0.63
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTTCAAAAAGCACCGCTAATGCTCGATCTTTA
Found at i:31939412 original size:29 final size:29
Alignment explanation
Indices: 31939335--31939413 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
31939325 AAAATTTCGT
** *
31939335 TATATATATACATACATGTGTTTTTATAA
1 TATATATATACATACACATATTTTTATAA
* *
31939364 TATATATATACATGCGCATATTTTTATAA
1 TATATATATACATACACATATTTTTATAA
* * *
31939393 TTTATCTATATATACACATAT
1 TATATATATACATACACATAT
31939414 ATACCTATAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (29 bp):
TATATATATACATACACATATTTTTATAA
Found at i:31939584 original size:39 final size:37
Alignment explanation
Indices: 31939529--31939609 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 37
31939519 ATATATTTTG
* *
31939529 TATATATTCTTTATATTTTATGATTCATATATACCTA
1 TATATATACTTTATATTTTATGATACATATATACCTA
** *
31939566 TATATATACTTTTAATATTTTATGATAGTTATATACGTA
1 TATATATAC-TTT-ATATTTTATGATACATATATACCTA
31939605 TATAT
1 TATAT
31939610 GTATGTACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 8 0.22
38 3 0.08
39 26 0.70
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (37 bp):
TATATATACTTTATATTTTATGATACATATATACCTA
Found at i:31939688 original size:34 final size:35
Alignment explanation
Indices: 31939650--31939723 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 35
31939640 ATGTATAATA
**
31939650 ATTTT-AAAATATGTATACATGTATATAT-TTTCAT
1 ATTTTCAAAAT-TGTATACACATATATATCTTTCAT
* * *
31939684 ATTTTCATAATTTTATACACATATATATCTTTTAT
1 ATTTTCAAAATTGTATACACATATATATCTTTCAT
31939719 ATTTT
1 ATTTT
31939724 TATAATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
34 19 0.58
35 14 0.42
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (35 bp):
ATTTTCAAAATTGTATACACATATATATCTTTCAT
Found at i:31951090 original size:2 final size:2
Alignment explanation
Indices: 31951083--31951112 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31951073 TATCTATATC
31951083 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
31951113 TATATATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:31960655 original size:69 final size:69
Alignment explanation
Indices: 31960544--31960950 Score: 375
Period size: 69 Copynumber: 5.9 Consensus size: 69
31960534 CGCAGGCAGT
* * ** * ** *
31960544 AACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGAAAAGAA
1 AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
31960609 CTAC
66 CTAC
* * *
31960613 AACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCAAGCGAAGAG
1 AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
**
31960678 CTGT
66 CTAC
* * * * *
31960682 AACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAAGTTCGCAGGCGAAGAG
1 AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
*
31960747 CTGC
66 CTAC
* * * * * * * *
31960751 AACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGTGAAGAG
1 AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
*
31960816 CCAC
66 CTAC
* * * * * * ** *
31960820 AACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTTACAGGTGAAGA-
1 AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
*
31960884 ATCAC
66 CT-AC
** * * ** * * *
31960889 AACCTCCAAAACAGTTAGTAAGAGCAAAACTCCTAGTTGTCATATTAAGGTTTGCAGACGAA
1 AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAA
31960951 AAACCAGAAC
Statistics
Matches: 275, Mismatches: 62, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
69 275 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (69 bp):
AACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAAGTTCGCAGGCGAAGAG
CTAC
Found at i:31960754 original size:138 final size:137
Alignment explanation
Indices: 31960542--31960940 Score: 447
Period size: 138 Copynumber: 2.9 Consensus size: 137
31960532 CTCGCAGGCA
* * * * * *
31960542 GTAACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGAAAAG
1 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAAGTTCGCAGGAGAAG
* * *
31960607 AACTACAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCAAGC
66 -ACTACAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCACAAGC
*
31960672 GAAGAGCT
130 GAAGAGCC
* *
31960680 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAAGTTCGCAGGCGAAG
1 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAAGTTCGCAGGAGAAG
* * * * * * * *
31960745 AGCTGCAACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGT
66 A-CTACAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCACAAGC
31960810 GAAGAGCC
130 GAAGAGCC
** * * * * * * ** *
31960818 ACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTTACAGGTGAAG
1 GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAAGTTCGCAGGAGAAG
* * * * *
31960883 AATCACAACCTCCAAAACAGTTAGTAAGAGCAAAACTCCTAGTTGTCATATTAAGGTT
66 ACT-ACAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTT
31960941 TGCAGACGAA
Statistics
Matches: 216, Mismatches: 43, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
137 2 0.01
138 214 0.99
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (137 bp):
GTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCCCAGCTGTCATATTAAAGTTCGCAGGAGAAG
ACTACAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCACAAGCG
AAGAGCC
Found at i:31960932 original size:207 final size:207
Alignment explanation
Indices: 31960544--31960950 Score: 440
Period size: 207 Copynumber: 2.0 Consensus size: 207
31960534 CGCAGGCAGT
* * ** * * **
31960544 AACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGAAAAGAA
1 AACCTCCAAAACAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAAGTTCACAGGAAAAGAA
* * * ** * * * *
31960609 CTACAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCAAGCGA
66 CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTCACAAGCGA
** * * *
31960674 AGAGCTGTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAAGTTCGCAG
131 AGAGCTACAACCTCCAAAAAAATTAGCAAGAGCAAAACTCTCAGCTGTCATATTAAAGTTCGCAG
*
31960739 GCGAAGAGCTGC
196 ACGAAGAGCTGC
* * ** *
31960751 AACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGTGAAGAG
1 AACCTCCAAAACAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAAGTTCACAGGAAAAGAA
* * *
31960816 CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTTACAGGTGA
66 CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTCACAAGCGA
* * * * * * *
31960881 AGA-ATCACAACCTCCAAAACAGTTAGTAAGAGCAAAACTC-CTAGTTGTCATATTAAGGTTTGC
131 AGAGCT-ACAACCTCCAAAAAAATTAGCAAGAGCAAAACTCTC-AGCTGTCATATTAAAGTTCGC
31960944 AGACGAA
194 AGACGAA
31960951 AAACCAGAAC
Statistics
Matches: 160, Mismatches: 38, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
206 2 0.01
207 158 0.99
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (207 bp):
AACCTCCAAAACAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAAGTTCACAGGAAAAGAA
CCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTCACAAGCGA
AGAGCTACAACCTCCAAAAAAATTAGCAAGAGCAAAACTCTCAGCTGTCATATTAAAGTTCGCAG
ACGAAGAGCTGC
Found at i:31960962 original size:138 final size:138
Alignment explanation
Indices: 31960481--31960981 Score: 376
Period size: 138 Copynumber: 3.7 Consensus size: 138
31960471 TAAAGAGTTG
* * * * * *
31960481 CAACCTCCAAAGCAGTTAGCGAGAGCAAAGCTCACAACTGTCATATCAAGGCTCGCAG--G----
1 CAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCGCAGACGAAAA
* * * * * ** * * ** *
31960540 --CAGTAACCTCTAAAACAGTTAGCGAGAGTAAAGCTCCCAGTTGTCATATTAAAGTTCGTAGGA
66 ACCAG-AACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAAGTTCACAGGC
* *
31960603 AAAGAACTA
130 GAAGAGCTA
* *
31960612 CAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAACTGTCATATTAATGTTCGCA-AGCG-AA
1 CAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCGCAGA-CGAAA
* * * * * * * * * *
31960675 GAGCTGTAACCTCCAAAAAAATTAGCGAGAGTAAAGCTCTCAGCTGTCATATTAAAGTTCGCAGG
65 AACCAG-AACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAAGTTCACAGG
*
31960740 CGAAGAGCTG
129 CGAAGAGCTA
* * * * * * ** *
31960750 CAACCTCCAAAATAGTTAGCGACAACAAAGCTCCCAATTGTAATATTAAGGTTCACAGGTGAAGA
1 CAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCGCAGACGAAAA
* * * * *
31960815 GCCACAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAGGTTTACAGGTG
66 ACCAGAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAAGTTCACAGGCG
*
31960880 AAGA-ATCA
131 AAGAGCT-A
* * * * *
31960888 CAACCTCCAAAACAGTTAGTAAGAGCAAAACTCCTAGTTGTCATATTAAGGTTTGCAGACGAAAA
1 CAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCGCAGACGAAAA
* * * *
31960953 ACCAGAACCTCTAAGATAATTAATGAGAG
66 ACCAGAACCTCCAAAAAAATTAACGAGAG
31960982 AAAAAATCTC
Statistics
Matches: 294, Mismatches: 65, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
131 51 0.17
133 1 0.00
137 1 0.00
138 239 0.81
139 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (138 bp):
CAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAATTGTCATATTAAGGTTCGCAGACGAAAA
ACCAGAACCTCCAAAAAAATTAACGAGAGCAAAGCTCCCAACTATCATAATAAAGTTCACAGGCG
AAGAGCTA
Found at i:31963340 original size:36 final size:36
Alignment explanation
Indices: 31963293--31963366 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
31963283 GGAGGAGCAC
* ** *
31963293 ATCAGTTAGAATAGATCTGAAAGGCTAATGAATTGA
1 ATCAGTCAGAATAGATCCAAAAGACTAATGAATTGA
*
31963329 ATCAGTCAGAATAGATCCAAAAGACTACTGAATTGA
1 ATCAGTCAGAATAGATCCAAAAGACTAATGAATTGA
31963365 AT
1 AT
31963367 AGAGCTTGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCCAAAAGACTAATGAATTGA
Found at i:31964655 original size:45 final size:45
Alignment explanation
Indices: 31964599--31964693 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
31964589 TACTATATGA
* *
31964599 ACCGAACATCATTGATTAGTAAGGTGGTCGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTCGCTATGTGCTGAATCC
* *
31964644 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTCGCTATGTGCTGAATCC
31964689 ACCGA
1 ACCGA
31964694 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTCGCTATGTGCTGAATCC
Found at i:31980757 original size:25 final size:25
Alignment explanation
Indices: 31980722--31980802 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
31980712 GGACACACCA
*
31980722 CAGCTCCTATGAGCTTCCCGTTATT
1 CAGCTCCTATGAGCTTCCCATTATT
* *
31980747 TAGCTCGTATGAGCTTCCCATTATT
1 CAGCTCCTATGAGCTTCCCATTATT
* *
31980772 CAGCTCAC-ATGATCCTCCCATTATT
1 CAGCTC-CTATGAGCTTCCCATTATT
31980797 CAGCTC
1 CAGCTC
31980803 GGAAGAGCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.35
Consensus pattern (25 bp):
CAGCTCCTATGAGCTTCCCATTATT
Found at i:31988484 original size:42 final size:43
Alignment explanation
Indices: 31988411--31988492 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
31988401 TAGTATATAT
*
31988411 AAATTTATTTTTCTTTTTTCTTGGGGGAAGATCTATCAATAAC
1 AAATTTATTATTCTTTTTTCTTGGGGGAAGATCTATCAATAAC
**
31988454 AAATTTATTATTCTTTTTT-TTTTGGGAAGATCTATCAAT
1 AAATTTATTATTCTTTTTTCTTGGGGGAAGATCTATCAAT
31988493 TACTTTCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 18 0.50
43 18 0.50
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (43 bp):
AAATTTATTATTCTTTTTTCTTGGGGGAAGATCTATCAATAAC
Found at i:31990048 original size:23 final size:22
Alignment explanation
Indices: 31990024--31990073 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
31990014 GAAAATATAT
* * *
31990024 TTTTATAATTTAAAACTTAAAA
1 TTTTAAAAATTAAAAATTAAAA
31990046 TTTTAAAAATTAAAAATTAAAAA
1 TTTTAAAAATTAAAAATT-AAAA
31990069 TTTTA
1 TTTTA
31990074 CATTTTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTTTAAAAATTAAAAATTAAAA
Found at i:31990052 original size:15 final size:15
Alignment explanation
Indices: 31990032--31990070 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
31990022 ATTTTTATAA
*
31990032 TTTAAAACTTAAAAT
1 TTTAAAAATTAAAAT
31990047 TTTAAAAATTAAAA-
1 TTTAAAAATTAAAAT
*
31990061 ATTAAAAATT
1 TTTAAAAATT
31990071 TTACATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAAATTAAAAT
Found at i:31993394 original size:13 final size:12
Alignment explanation
Indices: 31993372--31993422 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
31993362 AAAAAGGTGA
31993372 TTTTTTTTCTTT
1 TTTTTTTTCTTT
31993384 TTTTATTTTCTCTT
1 TTTT-TTTTCT-TT
* *
31993398 GTTGTTTTCTTT
1 TTTTTTTTCTTT
31993410 TTCTTTTTT-TTT
1 TT-TTTTTTCTTT
31993422 T
1 T
31993423 GGTTGTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 11 0.34
13 17 0.53
14 4 0.12
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:31999468 original size:103 final size:104
Alignment explanation
Indices: 31999343--31999538 Score: 313
Period size: 103 Copynumber: 1.9 Consensus size: 104
31999333 TTACACGGTC
* * *
31999343 GTGTCGCAAGCCATGTGCCAGACCGTGTAACTCATTGACTTGGTACACA-GTCGTGTCTCAGATC
1 GTGTCGCAAGCCATGTGCCAGACCGTGTAACTCACTGACTTGGTACACACGCCGTGTCTCAGACC
*
31999407 GTGTGAAACCTGCACCTAAAATAAAAATGGCAAACGACT
66 GTGTGAAACCTACACCTAAAATAAAAATGGCAAACGACT
* *
31999446 GTGTCGCAAGCCGTGTGCCAGACCGTGTAAGTCACTGACTTGGTACACACGGCCGTGTCTCAGAC
1 GTGTCGCAAGCCATGTGCCAGACCGTGTAACTCACTGACTTGGTACACAC-GCCGTGTCTCAGAC
*
31999511 CGTGTGAAACCTACACCTAAAATGAAAA
65 CGTGTGAAACCTACACCTAAAATAAAAA
31999539 CGACACAAGG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
103 46 0.55
105 38 0.45
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (104 bp):
GTGTCGCAAGCCATGTGCCAGACCGTGTAACTCACTGACTTGGTACACACGCCGTGTCTCAGACC
GTGTGAAACCTACACCTAAAATAAAAATGGCAAACGACT
Found at i:32011201 original size:25 final size:25
Alignment explanation
Indices: 32011173--32011220 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32011163 CGGAGAGCCA
*
32011173 TTAATCGGGAA-TATCACAAAGAGCT
1 TTAATCGAGAAGT-TCACAAAGAGCT
*
32011198 TTAATTGAGAAGTTCACAAAGAG
1 TTAATCGAGAAGTTCACAAAGAG
32011221 TCATATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (25 bp):
TTAATCGAGAAGTTCACAAAGAGCT
Found at i:32016255 original size:82 final size:81
Alignment explanation
Indices: 32016105--32016300 Score: 268
Period size: 82 Copynumber: 2.4 Consensus size: 81
32016095 GAAAGTCGAG
* * * * * *
32016105 ATAGCTTCGGTTATTAATGGCACTTAGTGTGCGATTTGGAATAGCTTTGGCTATATATGGCACTT
1 ATAGCTTCGGCTATTAATGGCACTTAGTGTGCGAATTAGAATAGCTTCGGCTATAGAAGGCACTT
32016170 AGTGTGCAGAATTATA
66 AGTGTGCAGAATTATA
*
32016186 ATAGCTTCGGCTATGTAA-GGCACTTAGTGTGCGAAATTATAATAGCTTCGGCTATAGAAGGCAC
1 ATAGCTTCGGCTAT-TAATGGCACTTAGTGTGCG-AATTAGAATAGCTTCGGCTATAGAAGGCAC
32016250 TTAGTGTGCAGAATTATA
64 TTAGTGTGCAGAATTATA
* *
32016268 ATAGCTTCGGCTATATGATTGGCAATTAGTGTG
1 ATAGCTTCGGCTAT-T-AATGGCACTTAGTGTG
32016301 TGACACATTG
Statistics
Matches: 101, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
81 28 0.28
82 60 0.59
83 1 0.01
84 12 0.12
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (81 bp):
ATAGCTTCGGCTATTAATGGCACTTAGTGTGCGAATTAGAATAGCTTCGGCTATAGAAGGCACTT
AGTGTGCAGAATTATA
Found at i:32016282 original size:41 final size:40
Alignment explanation
Indices: 32016105--32016300 Score: 234
Period size: 41 Copynumber: 4.8 Consensus size: 40
32016095 GAAAGTCGAG
* * **
32016105 ATAGCTTCGGTTATTA-ATGGCACTTAGTGTGCGATTTGGA
1 ATAGCTTCGGCTA-TAGATGGCACTTAGTGTGCGAATTATA
* *
32016145 ATAGCTTTGGCTATATATGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATAGATGGCACTTAGTGTGC-GAATTATA
*
32016186 ATAGCTTCGGCTAT-GTAAGGCACTTAGTGTGCGAAATTATA
1 ATAGCTTCGGCTATAG-ATGGCACTTAGTGTGCG-AATTATA
*
32016227 ATAGCTTCGGCTATAGAAGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATAGATGGCACTTAGTGTGC-GAATTATA
*
32016268 ATAGCTTCGGCTATATGATTGGCAATTAGTGTG
1 ATAGCTTCGGCTATA-GA-TGGCACTTAGTGTG
32016301 TGACACATTG
Statistics
Matches: 138, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
39 2 0.01
40 28 0.20
41 92 0.67
42 4 0.03
43 12 0.09
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (40 bp):
ATAGCTTCGGCTATAGATGGCACTTAGTGTGCGAATTATA
Found at i:32023568 original size:41 final size:41
Alignment explanation
Indices: 32023465--32023682 Score: 269
Period size: 41 Copynumber: 5.3 Consensus size: 41
32023455 GAAATTCGAG
* * **
32023465 ATAGCTTCGGTTAT-TAATGGCACTTAGTGTGC-GATTTGGA
1 ATAGCTTCGGCTATGTAA-GGCACTTAGTGTGCAGAATTATA
* * * *
32023505 ATAGCTTTGGCTATATATGGCACTTAGTGTGCATAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
* *
32023546 ATAGCTTTGGCTATGTAAGGCACTTAGTGTGCGGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
* * * **
32023587 ATAGCTTTGGCTATGGAAGGCACTTAGTTTGTGGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
*
32023628 ATAGCTTCGGCTAGGTAAGGCACTTAGTGTGCAGAATTATA
1 ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
32023669 ATAGCTTCGGCTAT
1 ATAGCTTCGGCTAT
32023683 ATGATTGGTA
Statistics
Matches: 155, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
40 26 0.17
41 129 0.83
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAAGGCACTTAGTGTGCAGAATTATA
Found at i:32026138 original size:25 final size:25
Alignment explanation
Indices: 32026075--32026138 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
32026065 GTTTGGGCAG
* *
32026075 CATATATACAAC-AAAATTGAGCAG
1 CATATATACAACAAAAATTGAACAA
* *
32026099 CAT-TTTCACACCAAAAATTGAACAA
1 CATATAT-ACAACAAAAATTGAACAA
32026124 CATATATACAACAAA
1 CATATATACAACAAA
32026139 TTGGGCAGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.06
24 7 0.23
25 20 0.65
26 2 0.06
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.22
Consensus pattern (25 bp):
CATATATACAACAAAAATTGAACAA
Found at i:32026150 original size:23 final size:23
Alignment explanation
Indices: 32026049--32026375 Score: 172
Period size: 23 Copynumber: 14.0 Consensus size: 23
32026039 AAAATTTGAA
* **
32026049 CAGCATATATACAATAGTTTGGG
1 CAGCATATATACAACAAATTGGG
*
32026072 CAGCATATATACAACAAAATTGAG
1 CAGCATATATACAAC-AAATTGGG
* * **
32026096 CAGCAT-TTTCACACCAAAAATTGAA
1 CAGCATATAT-ACA--ACAAATTGGG
*
32026121 CAACATATATACAACAAATTGGG
1 CAGCATATATACAACAAATTGGG
* * * *
32026144 CAGCATATATATATCAAATAGAG
1 CAGCATATATACAACAAATTGGG
** * * * **
32026167 CAATATTTTTACATCAAAATTGAA
1 CAGCATATATACAAC-AAATTGGG
* *
32026191 CAGCATATATACAACAATTTAGG
1 CAGCATATATACAACAAATTGGG
* * *
32026214 CAGCATATATATACCAAATTGAG
1 CAGCATATATACAACAAATTGGG
* * * * *
32026237 CAACATTTTTACATCAAAATTGGA
1 CAGCATATATACAAC-AAATTGGG
* *
32026261 CAGCATATATACAACAATTTAGG
1 CAGCATATATACAACAAATTGGG
* *
32026284 CAGCATATATA-TACAAAATTGAG
1 CAGCATATATACAAC-AAATTGGG
* * * * *
32026307 CAACATTTTTACATCAAAATTGGA
1 CAGCATATATACAAC-AAATTGGG
* * *
32026331 CAACATATATACAACAATTTAGG
1 CAGCATATATACAACAAATTGGG
* *
32026354 CAGCATAAATACAACGAATTGG
1 CAGCATATATACAACAAATTGG
32026376 ATATCATTTA
Statistics
Matches: 221, Mismatches: 74, Indels: 18
0.71 0.24 0.06
Matches are distributed among these distances:
22 2 0.01
23 134 0.61
24 67 0.30
25 15 0.07
26 3 0.01
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.27
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGGG
Found at i:32026198 original size:70 final size:70
Alignment explanation
Indices: 32026039--32026367 Score: 457
Period size: 70 Copynumber: 4.7 Consensus size: 70
32026029 TTTTCACACG
* * * * *
32026039 AAAATTTGAACAGCATATATACAATAGTTTGGGCAGCATATATACAACAAAATTGAGCAGCATTT
1 AAAA-TTGAACAGCATATATACAACAATTTAGGCAGCATATATA-TACAAAATTGAGCAACATTT
* *
32026104 TCACACC
64 TTACATC
* * * * *
32026111 AAAAATTGAACAACATATATACAACAAATTGGGCAGCATATATATATC-AAATAGAGCAATATTT
1 -AAAATTGAACAGCATATATACAACAATTTAGGCAGCATATATATA-CAAAATTGAGCAACATTT
32026175 TTACATC
64 TTACATC
*
32026182 AAAATTGAACAGCATATATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTT
1 AAAATTGAACAGCATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
32026247 ACATC
66 ACATC
*
32026252 AAAATTGGACAGCATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
1 AAAATTGAACAGCATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
32026317 ACATC
66 ACATC
* *
32026322 AAAATTGGACAACATATATACAACAATTTAGGCAGCATA-A-ATACAA
1 AAAATTGAACAGCATATATACAACAATTTAGGCAGCATATATATACAA
32026368 CGAATTGGAT
Statistics
Matches: 236, Mismatches: 18, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
68 6 0.03
69 2 0.01
70 169 0.72
71 19 0.08
72 36 0.15
73 4 0.02
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (70 bp):
AAAATTGAACAGCATATATACAACAATTTAGGCAGCATATATATACAAAATTGAGCAACATTTTT
ACATC
Found at i:32027136 original size:28 final size:28
Alignment explanation
Indices: 32027104--32027175 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
32027094 TTTAATAAGT
* *
32027104 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
32027132 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
*
32027160 TTGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
32027176 AATCTCATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:32033661 original size:23 final size:23
Alignment explanation
Indices: 32033638--32033976 Score: 197
Period size: 23 Copynumber: 14.5 Consensus size: 23
32033628 ACACCAAAAT
*
32033638 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
** *
32033661 TTGGGTAGCATATACACAACAAAA
1 TTGGACAGCATATATACAAC-AAA
* * *
32033685 TT-GAGCAGCATTTTTACACCAAAAA
1 TTGGA-CAGCATATATACA--ACAAA
32033710 TTGGACAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * * *
32033733 TTGGGCAGGATATATATACCAAA
1 TTGGACAGCATATATACAACAAA
* * * * *
32033756 TT-AAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
*
32033780 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
32033803 TTAGG-CAGCATATATATACCAAA
1 TT-GGACAGCATATATACAACAAA
* * * *
32033826 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
* *
32033850 TTGGAAAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
32033873 TTAGG-CAGCATATATATACCAAA
1 TT-GGACAGCATATATACAACAAA
* * * *
32033896 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
*
32033920 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
32033943 TTAGG-CAGCATAAATACAACGAA
1 TT-GGACAGCATATATACAACAAA
*
32033966 TTGGGCAGCAT
1 TTGGACAGCAT
32033977 TTAAGCATCA
Statistics
Matches: 234, Mismatches: 62, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
21 2 0.01
22 2 0.01
23 140 0.60
24 66 0.28
25 21 0.09
26 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.27
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:32033931 original size:47 final size:47
Alignment explanation
Indices: 32033632--32033937 Score: 171
Period size: 47 Copynumber: 6.5 Consensus size: 47
32033622 ATTTTCACAC
* * * * * * *
32033632 CAAAATTTGGACAGCATATATACAACAATTTGGGTAGCATATACACAA
1 CAAAA-TTGGACAGCATATATACACCAAATTGAGCAACATATATACAT
* * * *
32033680 CAAAATT-GAGCAGCATTTTTACACCAAAAATTG-GACAGCATATATACAA
1 CAAAATTGGA-CAGCATATATACACC--AAATTGAG-CAACATATATACAT
* * * * * *
32033729 C-AAATTGGGCAGGATATATATACCAAATTAAGCAACATTTTTACAT
1 CAAAATTGGACAGCATATATACACCAAATTGAGCAACATATATACAT
* * * *
32033775 CAAAATTGGACAGCATATATACAAC-AATTTAGGCAGCATATATATA-
1 CAAAATTGGACAGCATATATACACCAAATTGA-GCAACATATATACAT
* * * * * * *
32033821 CCAAATT-GAGCAACATTTTTACATCAAAATTG-GAAAGCATATATACAA
1 CAAAATTGGA-CAGCATATATACA-CCAAATTGAGCAA-CATATATACAT
* * * *
32033869 C-AATTTAGG-CAGCATATATATACCAAATTGAGCAACATTTTTACAT
1 CAAAATT-GGACAGCATATATACACCAAATTGAGCAACATATATACAT
32033915 CAAAATTGGACAGCATATATACA
1 CAAAATTGGACAGCATATATACA
32033938 ACAATTTAGG
Statistics
Matches: 193, Mismatches: 47, Indels: 37
0.70 0.17 0.13
Matches are distributed among these distances:
45 2 0.01
46 59 0.31
47 85 0.44
48 27 0.14
49 20 0.10
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATACACCAAATTGAGCAACATATATACAT
Found at i:32033990 original size:70 final size:70
Alignment explanation
Indices: 32033602--32033954 Score: 528
Period size: 70 Copynumber: 5.0 Consensus size: 70
32033592 TGGATAGATT
* * * *
32033602 TATATACCAAACT-AGACAACATTTTCACACCAAAATTTGGACAGCATATATACAACAATTTGGG
1 TATATACCAAATTGAG-CAACATTTTTACATCAAAA-TTGGACAGCATATATACAACAATTTAGG
*
32033666 TAGCATA
64 CAGCATA
* * * * * * *
32033673 TACACAACAAAATTGAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTGGG
1 TATA-TACCAAATTGAGCAACATTTTTACATC-AAAATTGGACAGCATATATACAACAATTTAGG
*
32033738 CAGGATA
64 CAGCATA
*
32033745 TATATACCAAATTAAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCA
1 TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCA
32033810 GCATA
66 GCATA
*
32033815 TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGAAAGCATATATACAACAATTTAGGCA
1 TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCA
32033880 GCATA
66 GCATA
32033885 TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCA
1 TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCA
32033950 GCATA
66 GCATA
32033955 AATACAACGA
Statistics
Matches: 258, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
70 173 0.67
71 25 0.10
72 54 0.21
73 6 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (70 bp):
TATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCA
GCATA
Found at i:32034713 original size:24 final size:24
Alignment explanation
Indices: 32034686--32034766 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
32034676 TCAAAAATAT
*
32034686 TTAATAAGTTCGCACACTTAGTGC
1 TTAATAAATTCGCACACTTAGTGC
32034710 TTAATAATCAATCTCGCACACTTAGTGC
1 TTAAT-A--AAT-TCGCACACTTAGTGC
*
32034738 TTTACAATTAAACTCGCACACTTAGTGC
1 -TT--AA-TAAATTCGCACACTTAGTGC
32034766 T
1 T
32034767 AATCTCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
27 3 0.06
28 30 0.64
29 4 0.09
31 3 0.06
32 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (24 bp):
TTAATAAATTCGCACACTTAGTGC
Found at i:32034727 original size:28 final size:28
Alignment explanation
Indices: 32034695--32034766 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
32034685 TTTAATAAGT
* *
32034695 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
32034723 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
32034751 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
32034767 AATCTCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:32037243 original size:18 final size:19
Alignment explanation
Indices: 32037199--32037244 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
32037189 AAAAAAAGCT
*
32037199 ATAACATATTTTTTTATGA
1 ATAATATATTTTTTTATGA
32037218 ATAAATATATTATTTTTAT-A
1 AT-AATATATT-TTTTTATGA
32037238 AT-ATATA
1 ATAATATA
32037245 GTACAGACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 2 0.08
20 10 0.42
21 7 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATAATATATTTTTTTATGA
Found at i:32039040 original size:16 final size:17
Alignment explanation
Indices: 32039019--32039052 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32039009 AATTTTCATG
*
32039019 TATTTTTT-TAAATATT
1 TATTTTTTAAAAATATT
32039035 TATTTTTTAAAAATATT
1 TATTTTTTAAAAATATT
32039052 T
1 T
32039053 TATTATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTTAAAAATATT
Found at i:32040298 original size:25 final size:22
Alignment explanation
Indices: 32040270--32040324 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 22
32040260 AAATTATAAA
*
32040270 ATTAAAATAGTACAGCATAATGTCG
1 ATTAAAATAG-A-AG-AAAATGTCG
*
32040295 ATTAAATTAGAAGAAAATGTCG
1 ATTAAAATAGAAGAAAATGTCG
32040317 ATTTAAAA
1 A-TTAAAA
32040325 AAAATAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.35
23 7 0.27
24 1 0.04
25 9 0.35
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (22 bp):
ATTAAAATAGAAGAAAATGTCG
Found at i:32050455 original size:50 final size:51
Alignment explanation
Indices: 32050302--32050489 Score: 182
Period size: 50 Copynumber: 3.6 Consensus size: 51
32050292 GGTGATGAGA
* * * *
32050302 TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCA---A-G-TATGAGAGG
* * *
32050358 TCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGT-TGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGTATGAGAGG
** * * **
32050408 TCCCCCGTAAGGCCATGTCTGGGACATGGCATGGGCACCGA-TATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGTATGAGAGG
* *
32050458 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCAT
32050490 TGGTAGTACA
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
49 1 0.01
50 73 0.65
51 1 0.01
52 1 0.01
53 1 0.01
56 35 0.31
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (51 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGTATGAGAGG
Found at i:32053903 original size:18 final size:19
Alignment explanation
Indices: 32053866--32053903 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
32053856 AATTTGATTA
*
32053866 ATTATTGATTTCATCCATG
1 ATTATTGATTTCATACATG
*
32053885 ATTATTGA-TTCATATATG
1 ATTATTGATTTCATACATG
32053903 A
1 A
32053904 ATTTACATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
ATTATTGATTTCATACATG
Found at i:32054724 original size:21 final size:23
Alignment explanation
Indices: 32054694--32054736 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32054684 ATGGATATAT
32054694 GTGGCCTTAATT-TGGTTGAGGG
1 GTGGCCTTAATTGTGGTTGAGGG
32054716 GTGG-CTTAATTGGTGGTTGAG
1 GTGGCCTTAATT-GTGGTTGAG
32054737 TGATGAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.14, C:0.07, G:0.42, T:0.37
Consensus pattern (23 bp):
GTGGCCTTAATTGTGGTTGAGGG
Found at i:32059279 original size:14 final size:15
Alignment explanation
Indices: 32059260--32059298 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
32059250 AAAAATAAAA
32059260 AAATTATAAA-TTAT
1 AAATTATAAATTTAT
32059274 AAATTATAAAATTTAT
1 AAATTAT-AAATTTAT
32059290 AAATATATA
1 AAAT-TATA
32059299 TAATGCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 3 0.14
16 9 0.41
17 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTATAAATTTAT
Found at i:32059293 original size:8 final size:7
Alignment explanation
Indices: 32059260--32059298 Score: 51
Period size: 7 Copynumber: 5.1 Consensus size: 7
32059250 AAAAATAAAA
32059260 AAATTAT
1 AAATTAT
32059267 AAATTAT
1 AAATTAT
32059274 AAATTAT
1 AAATTAT
32059281 AAAATTTAT
1 -AAA-TTAT
32059290 AAATATAT
1 AAAT-TAT
32059298 A
1 A
32059299 TAATGCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 15 0.52
8 10 0.34
9 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTAT
Found at i:32059352 original size:18 final size:18
Alignment explanation
Indices: 32059331--32059375 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
32059321 AAAAATATGT
*
32059331 ATATATAGAAATTATAAA
1 ATATATAGAAAATATAAA
*
32059349 ATATGTATAGAAAATATAAT
1 ATA--TATAGAAAATATAAA
32059369 ATATATA
1 ATATATA
32059376 CGTGTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (18 bp):
ATATATAGAAAATATAAA
Found at i:32059359 original size:20 final size:20
Alignment explanation
Indices: 32059334--32059372 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32059324 AATATGTATA
*
32059334 TATAGAAATTATAAAATATG
1 TATAGAAAATATAAAATATG
*
32059354 TATAGAAAATATAATATAT
1 TATAGAAAATATAAAATAT
32059373 ATACGTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (20 bp):
TATAGAAAATATAAAATATG
Found at i:32061182 original size:44 final size:43
Alignment explanation
Indices: 32061121--32061231 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 43
32061111 GATCTGCTCT
* * *
32061121 CTGCAACTTTAGAGAGATAAGATATGTGGTTTTAATCCAATCCA
1 CTGCAACTTTAGGGAGATAAGATAT-TGGCTTTAATACAATCCA
* * ***
32061165 CTTCAACTTCAGGGAGAT-AGAATTATTGGCTTTAATATGCTCCA
1 CTGCAACTTTAGGGAGATAAG-A-TATTGGCTTTAATACAATCCA
32061209 CTGCAACTTTAGGGAGATAAGAT
1 CTGCAACTTTAGGGAGATAAGAT
32061232 TCGCCTTATT
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
43 3 0.06
44 46 0.85
45 5 0.09
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (43 bp):
CTGCAACTTTAGGGAGATAAGATATTGGCTTTAATACAATCCA
Found at i:32073617 original size:26 final size:24
Alignment explanation
Indices: 32073584--32073632 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
32073574 CAATGATATA
32073584 GAAATAATATAAATAATAAATAAAT
1 GAAATAATATAAATAAT-AATAAAT
*
32073609 GAAATTAATATAAGTAATAATAAA
1 GAAA-TAATATAAATAATAATAAA
32073633 AATAATGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (24 bp):
GAAATAATATAAATAATAATAAAT
Found at i:32073823 original size:27 final size:26
Alignment explanation
Indices: 32073793--32073847 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
32073783 ATATACATTG
32073793 AAATTATGAAAAAATA-AAAAAAATTAT
1 AAATTAT-AAAAAATATAAAAAAA-TAT
**
32073820 AAATTATAAAATTTATAAAAAAATAT
1 AAATTATAAAAAATATAAAAAAATAT
32073846 AA
1 AA
32073848 TACATTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (26 bp):
AAATTATAAAAAATATAAAAAAATAT
Found at i:32073901 original size:20 final size:20
Alignment explanation
Indices: 32073873--32073919 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
32073863 AAAGAAAAAT
*
32073873 ATATATATAGAAATTATAAA
1 ATATATATAGAAAATATAAA
* *
32073893 ATATGTATAGAAAATATAAT
1 ATATATATAGAAAATATAAA
32073913 ATATATA
1 ATATATA
32073920 CGTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAATATAAA
Found at i:32085082 original size:14 final size:15
Alignment explanation
Indices: 32085063--32085095 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32085053 TGATTGTTTT
32085063 TAATCTAAATTTA-C
1 TAATCTAAATTTATC
*
32085077 TAATCTAATTTTATC
1 TAATCTAAATTTATC
32085092 TAAT
1 TAAT
32085096 AACACAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATCTAAATTTATC
Found at i:32087769 original size:32 final size:31
Alignment explanation
Indices: 32087728--32087800 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
32087718 ACAAGAAAAT
*
32087728 AAAAATAAAACAAAA-CAAATAAAAATAGAAA
1 AAAAATAAAACAAAATAAAATAAAAA-AGAAA
*
32087759 AAAACATAAAATAAAATAAAATAAAAAAGAAA
1 AAAA-ATAAAACAAAATAAAATAAAAAAGAAA
*
32087791 GAAAATAAAA
1 AAAAATAAAA
32087801 TAAATTATCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 10 0.27
32 18 0.49
33 9 0.24
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (31 bp):
AAAAATAAAACAAAATAAAATAAAAAAGAAA
Found at i:32087795 original size:16 final size:16
Alignment explanation
Indices: 32087720--32087800 Score: 67
Period size: 16 Copynumber: 5.0 Consensus size: 16
32087710 AAAGAAGTAC
*
32087720 AAGAAAATAAAA-ATAA
1 AAGAAAA-AAAATAAAA
* *
32087736 AACAAAACAAATAAAA
1 AAGAAAAAAAATAAAA
32087752 ATAGAAAAAAACATAAAA
1 A-AGAAAAAAA-ATAAAA
* *
32087770 TA-AAATAAAATAAAA
1 AAGAAAAAAAATAAAA
*
32087785 AAGAAAGAAAATAAAA
1 AAGAAAAAAAATAAAA
32087801 TAAATTATCC
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
15 10 0.19
16 28 0.54
17 8 0.15
18 6 0.12
ACGTcount: A:0.80, C:0.04, G:0.05, T:0.11
Consensus pattern (16 bp):
AAGAAAAAAAATAAAA
Found at i:32087795 original size:26 final size:25
Alignment explanation
Indices: 32087723--32087804 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 25
32087713 GAAGTACAAG
*
32087723 AAAATAAAAATAAAACAAAA-CAAAT
1 AAAATAAAAA-AAAACAAAATAAAAT
*
32087748 AAAAATAGAAAAAAACATAAAATAAAAT
1 -AAAATA-AAAAAAA-ACAAAATAAAAT
*
32087776 AAAATAAAAAAGAAAGAAAATAAAAT
1 AAAATAAAAAA-AAACAAAATAAAAT
32087802 AAA
1 AAA
32087805 TTATCCTCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 28 0.57
27 17 0.35
28 4 0.08
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (25 bp):
AAAATAAAAAAAAACAAAATAAAAT
Found at i:32087805 original size:4 final size:5
Alignment explanation
Indices: 32087723--32087804 Score: 67
Period size: 5 Copynumber: 15.6 Consensus size: 5
32087713 GAAGTACAAG
* * *
32087723 AAAAT AAAAAT AAAAC AAAA- CAAAT AAAAAT AGAAAA AAACAT AAAAT
1 AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT A-AAAT AAA-AT AAAAT
* *
32087771 AAAAT AAAAT AAAAA AGAAAG AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAA
32087805 TTATCCTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
4 3 0.05
5 39 0.62
6 21 0.33
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (5 bp):
AAAAT
Found at i:32089550 original size:26 final size:26
Alignment explanation
Indices: 32089514--32089591 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
32089504 AAGTAGAATT
32089514 AGAAAAATAATATAATATAACTAATA
1 AGAAAAATAATATAATATAACTAATA
* **
32089540 AGAAAAATAATA-GATGATAAAAAATA
1 AGAAAAATAATATAAT-ATAACTAATA
*
32089566 A-ATAAATAATATAATATAACTAATA
1 AGAAAAATAATATAATATAACTAATA
32089591 A
1 A
32089592 TAATAGATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 20 0.47
26 23 0.53
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AGAAAAATAATATAATATAACTAATA
Found at i:32089581 original size:42 final size:43
Alignment explanation
Indices: 32089518--32089621 Score: 109
Period size: 46 Copynumber: 2.3 Consensus size: 43
32089508 AGAATTAGAA
* * * *
32089518 AAATAATATAATATAACTAATAAGAAAAATAATAGATGATAAAAAAT
1 AAATAA-ATAA-ATAA-T-ATAACAATAATAATAGATAAGAAAAAAT
32089565 AAATAAATAATATAATATAACTAATAATAATAGATAAGAAACAAAT
1 AAATAAATAA-ATAATATAAC-AATAATAATAGATAAGAAA-AAAT
32089611 AAATAAATAAA
1 AAATAAATAAA
32089622 ATAGGGCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
44 4 0.08
45 18 0.35
46 23 0.45
47 6 0.12
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (43 bp):
AAATAAATAAATAATATAACAATAATAATAGATAAGAAAAAAT
Found at i:32089592 original size:17 final size:17
Alignment explanation
Indices: 32089519--32089593 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
32089509 GAATTAGAAA
*
32089519 AATAATATAATATAACT
1 AATAATATAAAATAACT
*
32089536 AATAAGA-AAAATAA-T
1 AATAATATAAAATAACT
* * *
32089551 AGATGATAAAAAATAAAT
1 A-ATAATATAAAATAACT
*
32089569 AAATAATATAATATAACT
1 -AATAATATAAAATAACT
32089587 AATAATA
1 AATAATA
32089594 ATAGATAAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.04
16 10 0.22
17 20 0.43
18 13 0.28
19 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (17 bp):
AATAATATAAAATAACT
Found at i:32089624 original size:51 final size:52
Alignment explanation
Indices: 32089517--32089624 Score: 134
Period size: 51 Copynumber: 2.1 Consensus size: 52
32089507 TAGAATTAGA
* *
32089517 AAAATAATATAATATAACTAATAAGAAAAATAATAGATGATAAAAAATAAAT
1 AAAATAATATAATATAACTAATAAGAAAAATAATAGATAACAAAAAATAAAT
* *
32089569 -AAATAATATAATATAACTAATAATAATAGAT-A-AGA-AACAAATAAATAAAT
1 AAAATAATATAATATAACTAATAAGAA-AAATAATAGATAACAAA-AAATAAAT
32089619 AAAATA
1 AAAATA
32089625 GGGCAAACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
49 4 0.08
50 11 0.22
51 31 0.63
52 3 0.06
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (52 bp):
AAAATAATATAATATAACTAATAAGAAAAATAATAGATAACAAAAAATAAAT
Found at i:32099532 original size:40 final size:40
Alignment explanation
Indices: 32099477--32099571 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
32099467 TTTGAATTCT
*
32099477 TGAAAAGGTTGAAAAGGGTATATCCGAAATAGATATCAAA
1 TGAAAAGGTTGAAAAGGATATATCCGAAATAGATATCAAA
* * *
32099517 TGAAAATGTTGAAAAGGATATATCCGAAATGGATATCCAA
1 TGAAAAGGTTGAAAAGGATATATCCGAAATAGATATCAAA
* *
32099557 TTAAAAGGTTAAAAA
1 TGAAAAGGTTGAAAA
32099572 AGGTTGTTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAAAAGGTTGAAAAGGATATATCCGAAATAGATATCAAA
Found at i:32105346 original size:19 final size:20
Alignment explanation
Indices: 32105324--32105365 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32105314 ATGGTATCAG
32105324 TACCAAAAG-AAAGTATCGA
1 TACCAAAAGCAAAGTATCGA
* *
32105343 TACCCAAAGCTAAGTATCGA
1 TACCAAAAGCAAAGTATCGA
32105363 TAC
1 TAC
32105366 TATGAGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.19
Consensus pattern (20 bp):
TACCAAAAGCAAAGTATCGA
Found at i:32107685 original size:24 final size:25
Alignment explanation
Indices: 32107657--32107711 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 25
32107647 GGGCTTATAG
*
32107657 TTTTTAGGTTAGGTTTTCTTTTCT-
1 TTTTTAGGTTAAGTTTTCTTTTCTC
*
32107681 TTTTTA-GTTAAGTTTTCTTTTTTC
1 TTTTTAGGTTAAGTTTTCTTTTCTC
32107705 TTTTTAG
1 TTTTTAG
32107712 AGTAGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.11, C:0.07, G:0.13, T:0.69
Consensus pattern (25 bp):
TTTTTAGGTTAAGTTTTCTTTTCTC
Found at i:32109329 original size:10 final size:10
Alignment explanation
Indices: 32109314--32109363 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
32109304 ATTAACATGT
32109314 TTAATTTTAA
1 TTAATTTTAA
32109324 TTAATTTTATAA
1 TTAA-TTT-TAA
* *
32109336 TAAATTTTTA
1 TTAATTTTAA
*
32109346 TTAATTTTGA
1 TTAATTTTAA
32109356 TTAATTTT
1 TTAATTTT
32109364 GATCATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 22 0.65
11 6 0.18
12 6 0.18
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:32112044 original size:25 final size:25
Alignment explanation
Indices: 32112016--32112131 Score: 133
Period size: 25 Copynumber: 4.6 Consensus size: 25
32112006 TAGTTAAGTT
* *
32112016 CTGACTCACAGCTCGTAAGAGCATA
1 CTGATTCACAGATCGTAAGAGCATA
* *
32112041 CTGATTCACAGTTCGCAAGAGCATA
1 CTGATTCACAGATCGTAAGAGCATA
* * * *
32112066 TTGATTTACAGATCATGAGAGCATA
1 CTGATTCACAGATCGTAAGAGCATA
* *
32112091 CTGATTTACAGCTCGTAAGAGCATA
1 CTGATTCACAGATCGTAAGAGCATA
*
32112116 CCGATTCACAGATCGT
1 CTGATTCACAGATCGT
32112132 GTGACCATAC
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 75 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (25 bp):
CTGATTCACAGATCGTAAGAGCATA
Found at i:32127253 original size:16 final size:15
Alignment explanation
Indices: 32127226--32127259 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
32127216 ATAGCTAGTA
*
32127226 TATAATTATATTTAT
1 TATAATTATATTAAT
32127241 TATAATATATATTAAT
1 TATAAT-TATATTAAT
32127257 TAT
1 TAT
32127260 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:32127594 original size:19 final size:19
Alignment explanation
Indices: 32127570--32127607 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32127560 ACCCTCACAT
32127570 GCACCTTGCGACTTTCCCC
1 GCACCTTGCGACTTTCCCC
32127589 GCACCTTGCGACTTTCCCC
1 GCACCTTGCGACTTTCCCC
32127608 ATCGCGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.47, G:0.16, T:0.26
Consensus pattern (19 bp):
GCACCTTGCGACTTTCCCC
Found at i:32138177 original size:8 final size:8
Alignment explanation
Indices: 32138164--32138189 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
32138154 AAATAATCTT
32138164 AATTCATC
1 AATTCATC
32138172 AATTCATC
1 AATTCATC
32138180 AATTCATC
1 AATTCATC
32138188 AA
1 AA
32138190 ACAAATCATG
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:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTCATC
Found at i:32139159 original size:12 final size:12
Alignment explanation
Indices: 32139142--32139172 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32139132 CCGAGCCGTC
*
32139142 AATATTTTTATG
1 AATATTTTTATA
32139154 AATATTTTTATA
1 AATATTTTTATA
32139166 AATATTT
1 AATATTT
32139173 ATGGATTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
AATATTTTTATA
Found at i:32140205 original size:20 final size:19
Alignment explanation
Indices: 32140158--32140206 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
32140148 TTTATTGAAA
*
32140158 ATGAATCAATATATATGTT
1 ATGAAACAATATATATGTT
* * *
32140177 ATTATACAATTTATCATGTT
1 ATGAAACAATATAT-ATGTT
32140197 ATGAAACAAT
1 ATGAAACAAT
32140207 GTAAATCCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
ATGAAACAATATATATGTT
Found at i:32141146 original size:20 final size:20
Alignment explanation
Indices: 32141123--32141166 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
32141113 TAAAGAAAGT
32141123 AAATGC-AATGGAAAGTAACA
1 AAATGCAAAT-GAAAGTAACA
*
32141143 AAATGCAAATGAAAGTAAGA
1 AAATGCAAATGAAAGTAACA
32141163 AAAT
1 AAAT
32141167 TTGGAAAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.59, C:0.07, G:0.18, T:0.16
Consensus pattern (20 bp):
AAATGCAAATGAAAGTAACA
Found at i:32143431 original size:22 final size:22
Alignment explanation
Indices: 32143399--32143451 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
32143389 GTTTTAACAA
32143399 TAGGCACCAAAGTGTAG-AGTAG
1 TAGGCACCAAAGTG-AGAAGTAG
* *
32143421 TAGGCATCAAAGTGAGAATTAG
1 TAGGCACCAAAGTGAGAAGTAG
32143443 TAGGCACCA
1 TAGGCACCA
32143452 TAGTACAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.19
Consensus pattern (22 bp):
TAGGCACCAAAGTGAGAAGTAG
Found at i:32149741 original size:24 final size:24
Alignment explanation
Indices: 32149695--32149754 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
32149685 GAAAGCTCGT
*
32149695 GAGAGCCATATATCAGGAAGCTCAA
1 GAGAGCCA-ACATCAGGAAGCTCAA
* * *
32149720 GAGAGCCAACATTAGGATGCTCAG
1 GAGAGCCAACATCAGGAAGCTCAA
*
32149744 GAGAGCTAACA
1 GAGAGCCAACA
32149755 ACGGGACGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (24 bp):
GAGAGCCAACATCAGGAAGCTCAA
Found at i:32153363 original size:104 final size:104
Alignment explanation
Indices: 32153183--32153553 Score: 559
Period size: 104 Copynumber: 3.6 Consensus size: 104
32153173 TAACCATTAT
** * *
32153183 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
32153248 AATCAGCACATAGCAACCCCCTTTTTCGTTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
* *
32153287 CGGTGGATATCGCACTTAGCATCACCAATGAATCACGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
32153352 AATCAGCACATAGCAACCCCC-TTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
32153390 CGGTGGATATCGCACTTAGCACCACCAATGAAATC-GAGGAATCAGCACTTAGCAACCCCTCGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCAG-GGAATCAGCACTTAGCAACCCCTCGGG
** *
32153454 GGAATCAGCACATAGCAACCCCCTTTCACATTTCAAATATA
64 GGAATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
* * * **
32153495 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCT
32153554 TTTATATACA
Statistics
Matches: 246, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
103 45 0.18
104 159 0.65
105 41 0.17
106 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
Found at i:32155871 original size:14 final size:14
Alignment explanation
Indices: 32155852--32155878 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32155842 CATTTTTCGG
32155852 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
32155866 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
32155879 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:32157685 original size:17 final size:17
Alignment explanation
Indices: 32157663--32157714 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
32157653 AATTTCCCAA
*
32157663 AGTAATAATGCAATATT
1 AGTAATAATGTAATATT
*
32157680 AGTAATAATATAATATT
1 AGTAATAATGTAATATT
*
32157697 AGTAATAACGTAATATT
1 AGTAATAATGTAATATT
32157714 A
1 A
32157715 ATAGAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (17 bp):
AGTAATAATGTAATATT
Found at i:32157843 original size:12 final size:13
Alignment explanation
Indices: 32157825--32157863 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
32157815 TTATCATATT
32157825 TAAATTTTAAATA
1 TAAATTTTAAATA
32157838 -AAATTTTAAATA
1 TAAATTTTAAATA
*
32157850 TTAAATATTAAATA
1 -TAAATTTTAAATA
32157864 CAAGACCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 12 0.52
14 11 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATTTTAAATA
Found at i:32158347 original size:186 final size:186
Alignment explanation
Indices: 32158035--32158421 Score: 615
Period size: 187 Copynumber: 2.1 Consensus size: 186
32158025 TATGCTGTTG
* * *
32158035 TACTATTATATTAATTTAGGCTTCAATTAACTAACTTTGAAGTTTAAACTATGTTTTAACAGACA
1 TACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACGATGTCTTAACAGACA
*
32158100 TTTTTTTTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCATCAATTAACTAACTTTA
66 TTTTTTCTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCATCAATTAACTAACTTTA
* * *
32158165 AA-TTTTAACTGTAGTTTAACATACTTTTTTTTGGTTTAATTTATGCTGTTGTACT-T
131 AAGTTTAAAATGTAGTTTAACATAC-TTTTTTT-GTTTAATTTATGCTGCTGTACTAT
*
32158221 ATACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAATTTTAAACGATAG-CTTAACAGA
1 -TACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACGAT-GTCTTAACAGA
*
32158285 C-TTTTTTCTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTT
64 CATTTTTTCTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCATCAATTAACTAACTT
32158349 TAAAGTTTAAAATGTAGTTTAACATACTTTTTTTGTTTAATTTATGCTGCTGTACTAT
129 TAAAGTTTAAAATGTAGTTTAACATACTTTTTTTGTTTAATTTATGCTGCTGTACTAT
32158407 TA-TATTA-ATTAATTT
1 TACTATTATATTAATTT
32158422 TTAATTTACT
Statistics
Matches: 188, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
183 8 0.04
184 5 0.03
185 23 0.12
186 73 0.39
187 78 0.41
188 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (186 bp):
TACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAACGATGTCTTAACAGACA
TTTTTTCTGTTTAATTTATGCTATTGTACTATTATATTAATTTAGGCATCAATTAACTAACTTTA
AAGTTTAAAATGTAGTTTAACATACTTTTTTTGTTTAATTTATGCTGCTGTACTAT
Found at i:32158371 original size:90 final size:89
Alignment explanation
Indices: 32158019--32158416 Score: 532
Period size: 90 Copynumber: 4.4 Consensus size: 89
32158009 CTTCAATTAC
* *
32158019 TTAATTTATGCTGTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTGAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTT-AAATTTAAA-
32158084 TATGT--TTTAACAGACATTTTTTTTGT
64 -ATGTAGTTTAACAGAC-TTTTTTTTGT
* * *
32158110 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCATCAATTAACTAACTTTAAATTTTAACT
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAATTTAAAAT
*
32158175 GTAGTTTAACATACTTTTTTTTGGT
66 GTAGTTTAACAGACTTTTTTTT-GT
*
32158200 TTAATTTATGCTGTTGTACTTATACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAATT
1 TTAATTTATGC-----TA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAATT
* * * *
32158265 TTAAACGATAGCTTAACAGACTTTTTTCTGT
60 TAAAATG-TAGTTTAACAGACTTTTTTTTGT
32158296 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAA-TTTAAAA
*
32158361 TGTAGTTTAACATAC-TTTTTTTGT
65 TGTAGTTTAACAGACTTTTTTTTGT
**
32158385 TTAATTTATGCTGCTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
32158417 AATTTTTAAT
Statistics
Matches: 275, Mismatches: 21, Indels: 24
0.86 0.07 0.08
Matches are distributed among these distances:
88 3 0.01
89 46 0.17
90 83 0.30
91 61 0.22
95 2 0.01
96 62 0.23
97 18 0.07
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (89 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAATTTAAAAT
GTAGTTTAACAGACTTTTTTTTGT
Found at i:32177562 original size:14 final size:15
Alignment explanation
Indices: 32177538--32177566 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32177528 ATGAAATTTC
32177538 ATGACTTGGTTTTGT
1 ATGACTTGGTTTTGT
32177553 ATGA-TTGGTTTTGT
1 ATGACTTGGTTTTGT
32177567 TTAAGTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.03, G:0.28, T:0.55
Consensus pattern (15 bp):
ATGACTTGGTTTTGT
Found at i:32178793 original size:22 final size:22
Alignment explanation
Indices: 32178744--32178810 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
32178734 GCTTGTATGG
* * *
32178744 GTTCAACATTTCTATGCTCTCT
1 GTTCAACACTTCGATGCTCTTT
**
32178766 ACTCAACACTTCGATGCTCTTT
1 GTTCAACACTTCGATGCTCTTT
32178788 GTTCAACACTTCGATGCTCTTT
1 GTTCAACACTTCGATGCTCTTT
32178810 G
1 G
32178811 ATTAGCACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.19, C:0.28, G:0.12, T:0.40
Consensus pattern (22 bp):
GTTCAACACTTCGATGCTCTTT
Found at i:32178819 original size:22 final size:21
Alignment explanation
Indices: 32178772--32178851 Score: 74
Period size: 22 Copynumber: 3.7 Consensus size: 21
32178762 CTCTACTCAA
*
32178772 CACTTC-GATGCTCTTTGTTCAA
1 CACTTCAG-TGCTCTTTGTT-AG
32178794 CACTTC-GATGCTCTTTGATTAG
1 CACTTCAG-TGCTCTTTG-TTAG
* *
32178816 CACTTCAGTGGTCTCTGCTTAG
1 CACTTCAGTGCTCTTTG-TTAG
32178838 CACTTCAGTGCTCT
1 CACTTCAGTGCTCT
32178852 CTACTTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
22 48 0.94
23 3 0.06
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.39
Consensus pattern (21 bp):
CACTTCAGTGCTCTTTGTTAG
Found at i:32178852 original size:22 final size:22
Alignment explanation
Indices: 32178794--32178876 Score: 87
Period size: 22 Copynumber: 3.8 Consensus size: 22
32178784 CTTTGTTCAA
* *
32178794 CACTTC-GATGCTCTTTGATTAG
1 CACTTCAG-TGCTCTCTGCTTAG
*
32178816 CACTTCAGTGGTCTCTGCTTAG
1 CACTTCAGTGCTCTCTGCTTAG
* *
32178838 CACTTCAGTGCTCTCTACTTAT
1 CACTTCAGTGCTCTCTGCTTAG
* *
32178860 CACTACAATGCTCTCTG
1 CACTTCAGTGCTCTCTG
32178877 GTGTGGTGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 50 0.98
23 1 0.02
ACGTcount: A:0.18, C:0.29, G:0.16, T:0.37
Consensus pattern (22 bp):
CACTTCAGTGCTCTCTGCTTAG
Found at i:32179598 original size:20 final size:20
Alignment explanation
Indices: 32179569--32179619 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
32179559 TTAACCAAAG
* *
32179569 GTATCAATACTAGACTTGGA
1 GTATCGATACTAGACTTAGA
32179589 GTATCGATACTAGACTTAGA
1 GTATCGATACTAGACTTAGA
32179609 GTATCGATACT
1 GTATCGATACT
32179620 TCCTTCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACTAGACTTAGA
Found at i:32180838 original size:15 final size:15
Alignment explanation
Indices: 32180818--32180848 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32180808 TAATATCAAT
32180818 TGTTTCAAACACCAC
1 TGTTTCAAACACCAC
*
32180833 TGTTTCCAACACCAC
1 TGTTTCAAACACCAC
32180848 T
1 T
32180849 AACTTTAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.29
Consensus pattern (15 bp):
TGTTTCAAACACCAC
Found at i:32184584 original size:26 final size:26
Alignment explanation
Indices: 32184539--32184597 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
32184529 TATTTCCTTG
* * *
32184539 AAATTTTACTAGGGGAAAAATCGTCA
1 AAATTTTACCAAGGGAAAAATCATCA
*
32184565 AAATTTTACCAAGGGTAAAATCATCA
1 AAATTTTACCAAGGGAAAAATCATCA
32184591 AAATTTT
1 AAATTTT
32184598 TTAGGGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAGGGAAAAATCATCA
Done.