Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 175 of 230
Found at i:52312891 original size:3 final size:3
Alignment explanation
Indices: 52312883--52312942 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
52312873 ATTAATATAT
* * ** *
52312883 ATA ATA ATA GTA TTA ATA GCA ATA ATA ATA GTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
52312931 ATA ATA ACA ATA
1 ATA ATA ATA ATA
52312943 TTAAACTAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:52312899 original size:21 final size:20
Alignment explanation
Indices: 52312873--52312933 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 20
52312863 AGTTAAGTAA
52312873 ATTAATATATATAATAATAGT
1 ATTAATA-ATATAATAATAGT
52312894 ATTAATAGCA-ATAATAATAGT
1 ATTAATA--ATATAATAATAGT
*
52312915 AATAATAATAATAATAATA
1 ATTAATAAT-ATAATAATA
52312934 ATAACAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTAATAATATAATAATAGT
Found at i:52312917 original size:9 final size:9
Alignment explanation
Indices: 52312875--52312937 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
52312865 TTAAGTAAAT
52312875 TAATATATA-
1 TAATA-ATAG
52312884 TAATAATAG
1 TAATAATAG
*
52312893 TATTAATAG
1 TAATAATAG
52312902 CAATAATAATAG
1 ---TAATAATAG
*
52312914 TAATAATAA
1 TAATAATAG
*
52312923 TAATAATAA
1 TAATAATAG
52312932 TAATAA
1 TAATAA
52312938 CAATATTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
8 3 0.06
9 36 0.77
12 8 0.17
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:52314687 original size:96 final size:95
Alignment explanation
Indices: 52314575--52314857 Score: 298
Period size: 92 Copynumber: 3.1 Consensus size: 95
52314565 TGCTTTACTA
* *
52314575 CAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTTCACTACAAATTCAGGGAAA
1 CAACTTCAGAGAGATAAGATCT-TAATTTATAGCTTCAATCTGTTCCACTACAAATTTAGGGAAA
*
52314640 TAAGATTCGCTATCTTCAATCTGCTCCACTG
65 TAAGATTCGCTATCTTCAATCTGCTCAACTG
* * * * ** * * *
52314671 CAACTTCAGGGAGATAAGA-C-T--TGTA-A-CTTCAACCTGCTCCACTGTAACTTTATGGAGAT
1 CAACTTCAGAGAGATAAGATCTTAATTTATAGCTTCAATCTGTTCCACTACAAATTTAGGGAAAT
* * * * *
52314730 AAGATTTG--AT-AT-GATTTGCTCTACTG
66 AAGATTCGCTATCTTCAATCTGCTCAACTG
* *
52314756 TAGCTTCAGAGAGATAAGATCTATAATTTATAGCTTCAATCTGTTCCACTACAAATTTAGGGAAA
1 CAACTTCAGAGAGATAAGATCT-TAATTTATAGCTTCAATCTGTTCCACTACAAATTTAGGGAAA
*
52314821 TAAGATTCGCTATCTTCAATCTGTTCAACTG
65 TAAGATTCGCTATCTTCAATCTGCTCAACTG
52314852 CAACTT
1 CAACTT
52314858 TATGGAGATA
Statistics
Matches: 141, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
85 27 0.19
86 2 0.01
87 2 0.01
88 1 0.01
89 31 0.22
90 4 0.03
91 4 0.03
92 33 0.23
93 1 0.01
94 2 0.01
95 2 0.01
96 32 0.23
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (95 bp):
CAACTTCAGAGAGATAAGATCTTAATTTATAGCTTCAATCTGTTCCACTACAAATTTAGGGAAAT
AAGATTCGCTATCTTCAATCTGCTCAACTG
Found at i:52314740 original size:181 final size:181
Alignment explanation
Indices: 52314483--52314869 Score: 560
Period size: 181 Copynumber: 2.1 Consensus size: 181
52314473 TTTAATCCGT
* * ** *
52314483 TCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTCAATCTCCTCCACAGCAACTTTATGGAGA
1 TCCACTGCAACTTCAAGGAGATAAGATTGGTAACTTCAACCTCCTCCACAGCAACTTTATGGAGA
* * *
52314548 TAAGGTTTGATATGATCTGCTTTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCA
66 TAAGATTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCA
*
52314613 ATCTGTTTCACTACAAATTCAGGGAAATAAGATTCGCTATCTTCAATCTGC
131 ATCTGTTCCACTACAAATTCAGGGAAATAAGATTCGCTATCTTCAATCTGC
* * * *
52314664 TCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTCCACTGTAACTTTATGGAG
1 TCCACTGCAACTTCAAGGAGATAAGA-TTGGTAACTTCAACCTCCTCCACAGCAACTTTATGGAG
* ** *
52314728 ATAAGATTTGATATGATTTGCTCTACTGTAGCTTCAGAGAGATAAGATCTATAATTTATAGCTTC
65 ATAAGATTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTC
* *
52314793 AATCTGTTCCACTACAAATTTAGGGAAATAAGATTCGCTATCTTCAATCTGT
130 AATCTGTTCCACTACAAATTCAGGGAAATAAGATTCGCTATCTTCAATCTGC
* * *
52314845 TCAACTGCAACTTTATGGAGATAAG
1 TCCACTGCAACTTCAAGGAGATAAG
52314870 GTTTGATATG
Statistics
Matches: 183, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
181 181 0.99
182 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (181 bp):
TCCACTGCAACTTCAAGGAGATAAGATTGGTAACTTCAACCTCCTCCACAGCAACTTTATGGAGA
TAAGATTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATAATTTATAGCTTCA
ATCTGTTCCACTACAAATTCAGGGAAATAAGATTCGCTATCTTCAATCTGC
Found at i:52314875 original size:137 final size:137
Alignment explanation
Indices: 52314653--52315007 Score: 525
Period size: 137 Copynumber: 2.6 Consensus size: 137
52314643 GATTCGCTAT
* * * * *
52314653 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGCTCCACTGT
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAATCTGCTCCACTGC
* *
52314716 AACTTTATGGAGATAAGATTTGATATGATTTGCTCTACTGTAGCTTCAGAGAGATAAGATCTATA
65 AACTTTATGGAGATAAGATTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTATA
52314781 ATTTATAG
130 ATTTATAG
* * * * *
52314789 CTTCAATCTGTTCCACTACAAATTTAGGGAAATAAGATTCGCTATCTTCAATCTGTTCAACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCA
* *
52314854 ACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAA
66 ACTTTATGGAGATAAGATTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTATAA
52314919 TTTATAG
131 TTTATAG
* *
52314926 CTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCGCTATGTTCAATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCA
* *
52314991 ACTTCAGGGAGATAAGA
66 ACTTTATGGAGATAAGA
52315008 CTTGTAAGTT
Statistics
Matches: 193, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
135 2 0.01
136 33 0.17
137 158 0.82
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (137 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCA
ACTTTATGGAGATAAGATTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTATAA
TTTATAG
Found at i:52314923 original size:318 final size:315
Alignment explanation
Indices: 52314338--52315187 Score: 1127
Period size: 318 Copynumber: 2.7 Consensus size: 315
52314328 TGAAACATTT
* * * * * *
52314338 GCTATCTTCAATTTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAGCTTCCACATGTTTCAC
1 GCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCAC
* * * * * *** * *
52314403 TATAATTTTAAGGAAATAACGTCTGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCC
66 TGTAACTTTATGGAGATAA-GTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCT
* * * * * * * *
52314468 ATCA-T-T---TT-AATCCGTTCCACTGCAACTTCAAAGAGATAGGATTGGTTTCTTCAATCTCC
130 ATAATTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTGCTATCTTCAATCTGC
* * *
52314527 TCCACAGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTTTACTACAACTTCAGAGAGATAA
195 TCAACTGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAA
*
52314592 GATCTGTAATTTATAGCTTCAATCTGTTTCACTACAAATTCAGGGAAATAAGATTC
260 GATCTGTAATTTATAGCTTCAATCTGTTCCACTACAAATTCAGGGAAATAAGATTC
*
52314648 GCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCAC
1 GCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCAC
* *
52314713 TGTAACTTTATGGAGATAAGATTTGATATGATTTGCTCTACTGTAGCTTCAGAGAGATAAGATCT
66 TGTAACTTTATGGAGATAAG-TTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCT
* * * *
52314778 ATAATTTATAGCTTCAATCTGTTCCACTACAAATTTAGGGAAATAAGATTCGCTATCTTCAATCT
130 ATAA-TTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATT-GCTATCTTCAATCT
* * *
52314843 GTTCAACTGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGAT
193 GCTCAACTGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTACAACTTCAGAGAGAT
* * *
52314908 AAGATCTGTAATTTATAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTC
258 AAGATCTGTAATTTATAGCTTCAATCTGTTCCACTACAAATTCAGGGAAATAAGATTC
* *
52314966 GCTATGTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAGTTCAACCTGTTCCAC
1 GCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCAC
*
52315031 TGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCT
66 TGTAACTTTATGGAGATAA-GTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCT
* * * * *
52315096 GTAACTTATAGCTTCAATCTGTTCCATTGCAACTTCAAGGAAATAATATTTGCTATGTTCAGTCT
130 ATAA-TTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGA-TTGCTATCTTCAATCT
* * *
52315161 GCTCTACTGCAACTTCAAGGAGATAAG
193 GCTCAACTGCAACTTTATGGAGATAAG
52315188 ACTTCACTTC
Statistics
Matches: 468, Mismatches: 61, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
309 1 0.00
310 112 0.24
312 1 0.00
313 1 0.00
316 2 0.00
317 27 0.06
318 321 0.69
319 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (315 bp):
GCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGTTCCAC
TGTAACTTTATGGAGATAAGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTA
TAATTATAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTGCTATCTTCAATCTGCT
CAACTGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAG
ATCTGTAATTTATAGCTTCAATCTGTTCCACTACAAATTCAGGGAAATAAGATTC
Found at i:52314961 original size:92 final size:93
Alignment explanation
Indices: 52314834--52315188 Score: 379
Period size: 92 Copynumber: 3.8 Consensus size: 93
52314824 GATTCGCTAT
* * * * *
52314834 CTTCAATCTGTTCAACTGCAACTTTATGGAGATAAGGTTTGATATG-ATCTGCTCTACTGCAGCT
1 CTTCAATCTGTTCCACTGCAACTTCATGGAAATAAGATTTGATATGTATCTGCTCTACTGCAACT
52314898 TCAGAGAGATAAGATCTGTAATTTATAG
66 TCAGAGAGATAAGATCTGTAATTTATAG
* * * * *
52314926 CTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCGCTATGTTCAATCTGCTCCACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCATGGAAATAAGATTTGATATG-T--ATCTGCTCTACTGCA
* *
52314991 ACTTCAGGGAGATAAGA-C--T--TGTA-AG
63 ACTTCAGAGAGATAAGATCTGTAATTTATAG
* * * * *
52315016 -TTCAACCTGTTCCACTGCAACTTTATGGAGATAAGGTTTGATATG-ATCTGCTCTACTGCAGCT
1 CTTCAATCTGTTCCACTGCAACTTCATGGAAATAAGATTTGATATGTATCTGCTCTACTGCAACT
*
52315079 TCAGAGAGATAAGATCTGTAACTTATAG
66 TCAGAGAGATAAGATCTGTAATTTATAG
* * * *
52315107 CTTCAATCTGTTCCATTGCAACTTCAAGGAAATAATATTTGCTATGTTCAGTCTGCTCTACTGCA
1 CTTCAATCTGTTCCACTGCAACTTCATGGAAATAAGATTTGATATG-T-A-TCTGCTCTACTGCA
52315172 ACTTCA-AGGAGATAAGA
63 ACTTCAGA-GAGATAAGA
52315189 CTTCACTTCA
Statistics
Matches: 213, Mismatches: 34, Indels: 28
0.77 0.12 0.10
Matches are distributed among these distances:
85 29 0.14
86 1 0.00
88 1 0.00
89 37 0.17
90 4 0.02
91 5 0.02
92 75 0.35
93 1 0.00
95 3 0.01
96 57 0.27
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (93 bp):
CTTCAATCTGTTCCACTGCAACTTCATGGAAATAAGATTTGATATGTATCTGCTCTACTGCAACT
TCAGAGAGATAAGATCTGTAATTTATAG
Found at i:52315059 original size:181 final size:183
Alignment explanation
Indices: 52314790--52315192 Score: 641
Period size: 181 Copynumber: 2.2 Consensus size: 183
52314780 AATTTATAGC
* * * * * * *
52314790 TTCAATCTGTTCCACTACAAATTTAGGGAAATAAGA-TTCGCTATCTTCAATCTGTTCAACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCTAACTTCAACCTGTTCAACTGCA
52314854 ACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAA
66 ACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAA
* *
52314919 TTTATAGCTTCAATCTGTTCCATTGCAACTTCAGGGAAATAAGATTCGCTATG
131 CTTATAGCTTCAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCTATG
* *
52314972 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAAGTTCAACCTGTTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCTAACTTCAACCTGTTCAACTGCA
52315035 ACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAA
66 ACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAA
* *
52315100 CTTATAGCTTCAATCTGTTCCATTGCAACTTCAAGGAAATAATATTTGCTATG
131 CTTATAGCTTCAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCTATG
* * *
52315153 TTCAGTCTGCTCTACTGCAACTTCAAGGAGATAAGACTTC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTC
52315193 ACTTCAATCC
Statistics
Matches: 203, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
181 169 0.83
182 32 0.16
183 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (183 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCTAACTTCAACCTGTTCAACTGCA
ACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAA
CTTATAGCTTCAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCTATG
Found at i:52319957 original size:18 final size:18
Alignment explanation
Indices: 52319934--52319968 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52319924 ATGATTTGAC
*
52319934 AAAGAATTCAAAATAATG
1 AAAGAATCCAAAATAATG
52319952 AAAGAATCCAAAATAAT
1 AAAGAATCCAAAATAAT
52319969 TACTTATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAGAATCCAAAATAATG
Found at i:52327876 original size:12 final size:12
Alignment explanation
Indices: 52327861--52327917 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
52327851 AATGATATAT
*
52327861 ATAAAAATAATA
1 ATAACAATAATA
* * *
52327873 ATAATAGTATTA
1 ATAACAATAATA
*
52327885 ATAGCAATAATA
1 ATAACAATAATA
*
52327897 ATAACAATACTA
1 ATAACAATAATA
52327909 ATAACAATA
1 ATAACAATA
52327918 TTAAACTAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (12 bp):
ATAACAATAATA
Found at i:52329877 original size:34 final size:34
Alignment explanation
Indices: 52329829--52329910 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
52329819 GATACACGAG
* * * *
52329829 TAAACTACAACACACCAGATAGCTTGTAGGAGCT
1 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
52329863 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
1 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
*
52329897 TAAACTATACCACA
1 TAAACTACACCACA
52329911 ACATGACACC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (34 bp):
TAAACTACACCACACCAGATAGCTCGCAAGAGCT
Found at i:52336560 original size:21 final size:21
Alignment explanation
Indices: 52336534--52336579 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
52336524 TTTTCTGTCT
52336534 TTTATTAACTAAATAACTGAA
1 TTTATTAACTAAATAACTGAA
52336555 TTTATTAACTAAATAACTGAA
1 TTTATTAACTAAATAACTGAA
52336576 TTTA
1 TTTA
52336580 AATAGAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (21 bp):
TTTATTAACTAAATAACTGAA
Found at i:52336710 original size:19 final size:19
Alignment explanation
Indices: 52336686--52336726 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
52336676 TGATTTATTC
52336686 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
52336705 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
52336724 TAA
1 TAA
52336727 CTTTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:52356094 original size:16 final size:16
Alignment explanation
Indices: 52356073--52356117 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
52356063 ATATATTTTC
* *
52356073 TAAATATAATAATGTA
1 TAAATAAAATAATGAA
*
52356089 TAAATAAAATCATGAA
1 TAAATAAAATAATGAA
*
52356105 TATATAAAATAAT
1 TAAATAAAATAAT
52356118 ACTTGAAATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (16 bp):
TAAATAAAATAATGAA
Found at i:52356682 original size:91 final size:91
Alignment explanation
Indices: 52356478--52356683 Score: 253
Period size: 92 Copynumber: 2.3 Consensus size: 91
52356468 TTTAAGGGGT
*
52356478 AAAAAACCCTCAAAC-T-TT--AAAAAAAAACAATTAAGCCCCTCTTTTTTTTTTGCACTCAATT
1 AAAAAACCCTCAAACTTCTTCAAAAAAAAAACAATTAAGCCCCTCTTTTTTTTATGCACTCAATT
* *
52356539 GAGCAATTGAATTTTCAAAATGTATC
66 GAGCAATTGAACTTTCAAAATGCATC
**
52356565 AAAAAGGCCTCAAACTTCTTCAAAAAAAAAAGCAATTAAGCCCCTGC-TTTTTTTAT-CACTCAA
1 AAAAAACCCTCAAACTTCTTCAAAAAAAAAA-CAATTAAGCCCCT-CTTTTTTTTATGCACTCAA
* *
52356628 TTGGGCACTTGAACTTTCAAAATGCATC
64 TTGAGCAATTGAACTTTCAAAATGCATC
* * *
52356656 AAAAAAACCCTTAAATTTTTTCAAAAAA
1 -AAAAAACCCTCAAACTTCTTCAAAAAA
52356684 GCAAGTAAGC
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
87 13 0.13
88 1 0.01
89 2 0.02
91 40 0.40
92 43 0.43
93 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (91 bp):
AAAAAACCCTCAAACTTCTTCAAAAAAAAAACAATTAAGCCCCTCTTTTTTTTATGCACTCAATT
GAGCAATTGAACTTTCAAAATGCATC
Found at i:52356741 original size:19 final size:21
Alignment explanation
Indices: 52356705--52356750 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
52356695 TTGCCCTTAT
*
52356705 TAAAAATTAGAAAGAAAATTA
1 TAAAAAATAGAAAGAAAATTA
52356726 TAAAAAATA-AAA-AAAATTA
1 TAAAAAATAGAAAGAAAATTA
*
52356745 GAAAAA
1 TAAAAA
52356751 TTATTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 12 0.52
20 3 0.13
21 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
TAAAAAATAGAAAGAAAATTA
Found at i:52356810 original size:17 final size:18
Alignment explanation
Indices: 52356770--52356813 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
52356760 TTTAATAAAA
52356770 TATAAAAATAGATTTTTT
1 TATAAAAATAGATTTTTT
* *
52356788 TTTAAAATTAGA-TTTTT
1 TATAAAAATAGATTTTTT
52356805 TATAAAAAT
1 TATAAAAAT
52356814 CATAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TATAAAAATAGATTTTTT
Found at i:52356812 original size:18 final size:18
Alignment explanation
Indices: 52356770--52356813 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
52356760 TTTAATAAAA
52356770 TATAAAAA-TAGATTTTT
1 TATAAAAATTAGATTTTT
* *
52356787 TTTTAAAATTAGATTTTT
1 TATAAAAATTAGATTTTT
52356805 TATAAAAAT
1 TATAAAAAT
52356814 CATAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TATAAAAATTAGATTTTT
Found at i:52357098 original size:56 final size:57
Alignment explanation
Indices: 52357013--52357135 Score: 160
Period size: 56 Copynumber: 2.2 Consensus size: 57
52357003 ATTTACGAAC
* * *
52357013 TTTATATTTCTTTACATTTGGTATAATTTTCTTACGACT-TTATAAAATTTTATAATTT
1 TTTATATTTCTATACATTT-GTATAATTTT-TTACGACTCTTATAAAAGTTTACAATTT
* * *
52357071 TTTATATTTCTATATATTT-TATGATTTTTTACGATTCTTATAAAAGTTTACAATTT
1 TTTATATTTCTATACATTTGTATAATTTTTTACGACTCTTATAAAAGTTTACAATTT
52357127 TTTATATTT
1 TTTATATTT
52357136 TTTTACGATT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
55 7 0.12
56 34 0.59
58 17 0.29
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.59
Consensus pattern (57 bp):
TTTATATTTCTATACATTTGTATAATTTTTTACGACTCTTATAAAAGTTTACAATTT
Found at i:52357108 original size:27 final size:26
Alignment explanation
Indices: 52357059--52357112 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
52357049 ACTTTATAAA
*
52357059 ATTTTATAATTTTTTATATTTCTATAT
1 ATTTTATAATTTTTTAGATTTCT-TAT
*
52357086 ATTTTATGATTTTTTACGA-TTCTTAT
1 ATTTTATAATTTTTTA-GATTTCTTAT
52357112 A
1 A
52357113 AAAGTTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.17
27 19 0.79
28 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTTATAATTTTTTAGATTTCTTAT
Found at i:52357140 original size:20 final size:20
Alignment explanation
Indices: 52357117--52357154 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52357107 CTTATAAAAG
*
52357117 TTTACAATTTTTTATATTTT
1 TTTACAATTTTTAATATTTT
*
52357137 TTTACGATTTTTAATATT
1 TTTACAATTTTTAATATT
52357155 GGAATTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTACAATTTTTAATATTTT
Found at i:52357434 original size:89 final size:90
Alignment explanation
Indices: 52357250--52357440 Score: 280
Period size: 89 Copynumber: 2.1 Consensus size: 90
52357240 GGCTTAAATT
* * *
52357250 TTTTTTTGAAAAAGTTTTAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC
1 TTTTTTTG-AAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGC
* *
52357315 AAAAAAAAACGTAGGGGCTTAATTGC
65 AAAAAAAAACGAAGGGGCTTAATTAC
*
52357341 --TTTTTGAAAAGCTTTGAGGGCCTTTTTGATGCATTTTGAAGGTTCAAGTACCCAAATGAGTGC
1 TTTTTTTGAAAAG-TTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGC
*
52357404 AAAAAAATA-GAAGGGGCTTAATTAC
65 AAAAAAAAACGAAGGGGCTTAATTAC
52357429 TTTTTTTGAAAA
1 TTTTTTTGAAAA
52357441 AACTTGACGA
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
88 19 0.21
89 61 0.68
90 10 0.11
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (90 bp):
TTTTTTTGAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAAATGAGTGCA
AAAAAAAACGAAGGGGCTTAATTAC
Found at i:52361511 original size:27 final size:27
Alignment explanation
Indices: 52361473--52361528 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
52361463 TCTAAATGTA
52361473 GACTAAGATTTTGAAAAGGAGTTTAGG
1 GACTAAGATTTTGAAAAGGAGTTTAGG
52361500 GACTAAGATTTTGAAAAGGAGTTTAGG
1 GACTAAGATTTTGAAAAGGAGTTTAGG
52361527 GA
1 GA
52361529 TTCATAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.30, T:0.29
Consensus pattern (27 bp):
GACTAAGATTTTGAAAAGGAGTTTAGG
Found at i:52384536 original size:40 final size:40
Alignment explanation
Indices: 52384483--52384794 Score: 498
Period size: 40 Copynumber: 7.8 Consensus size: 40
52384473 CAGCCGCAAA
* * * *
52384483 CATATTTGCCTTCGGGTCTTAACCCGGACATATGAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
52384523 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCATCCCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
52384563 CATAATTGCCTTCGGGTCATAGCCTGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
52384603 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
52384643 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
* *
52384683 CATAATTGCCTTCGGGTCATAACCCGGATATATCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
*
52384723 CATAATTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCG
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
52384763 CATAATTGCCTTCGGGTCTTAGCCCGGATATA
1 CATAATTGCCTTCGGGTCTTAGCCCGGATATA
52384795 ATCCAATGTT
Statistics
Matches: 252, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 252 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (40 bp):
CATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCG
Found at i:52397831 original size:50 final size:50
Alignment explanation
Indices: 52397755--52397991 Score: 305
Period size: 50 Copynumber: 4.7 Consensus size: 50
52397745 GGTAAAGAGA
** *
52397755 TCCCATGTAAGACCATGTCAAGGACATGGCGTTGGCACCGAGATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
* * *
52397805 ACCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
*
52397855 TCCCATGTAAGACCATGTCTGGGACATGGTC-TTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGG-CATTGGCACCGAGATGAGAAG
** * * * * *
52397905 TCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
* * *
52397955 TCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
52397992 GTACAAGAAA
Statistics
Matches: 165, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 163 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAG
Found at i:52398025 original size:49 final size:50
Alignment explanation
Indices: 52397758--52398030 Score: 192
Period size: 50 Copynumber: 5.5 Consensus size: 50
52397748 AAAGAGATCC
** * * * * * ** *
52397758 CATGTAAGACCATGTCAAGGACATGGCGTTGGCACCGAGATGAGAAGACC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * * * ** *
52397808 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * * ** *
52397858 CATGTAAGACCATGTCTGGGACATGGTC-TTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGG-CATGGGCACCTACAAGAGAACTCT
** * * *
52397908 CCCGTAAGACCATGTCTGAGACATGGCATGGGCACCTATATGAGAACTCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
* * * *
52397958 CATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAGA-AACATCT
1 CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAAC-TCT
*
52398007 CATGTAAGACTATGTCTGGGACAT
1 CATGTAAGACCATGTCTGGGACAT
52398031 AGCTTTGGCA
Statistics
Matches: 195, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
48 3 0.02
49 30 0.15
50 161 0.83
51 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATGGGCACCTACAAGAGAACTCT
Found at i:52405562 original size:51 final size:51
Alignment explanation
Indices: 52405504--52405604 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
52405494 ATGAGTTTCA
* *
52405504 TCAATGTGCTGCAGTAGTGCGAAAATTAAGGTGTTGGTCCTTACTCGTTAG
1 TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTTAG
*
52405555 TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTGCTCGTTA
1 TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTTA
52405605 ACTTGAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (51 bp):
TCAATGTGCTGCAATAGTGCGAAAATTAAGATGTTGGTCCTTACTCGTTAG
Found at i:52407793 original size:12 final size:12
Alignment explanation
Indices: 52407776--52407803 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
52407766 TCAGGTAGTT
52407776 ACACGGCCTAGC
1 ACACGGCCTAGC
52407788 ACACGGCCTAGC
1 ACACGGCCTAGC
52407800 ACAC
1 ACAC
52407804 AGGCATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.43, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:52410198 original size:30 final size:30
Alignment explanation
Indices: 52410162--52410227 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
52410152 TTCACATGGT
52410162 CGTGTGAGCTGATCGTATGTGGAACACGAC
1 CGTGTGAGCTGATCGTATGTGGAACACGAC
* * * *
52410192 CGTGTGAGGTGATTGTGTGTGGCACACGAC
1 CGTGTGAGCTGATCGTATGTGGAACACGAC
52410222 CGTGTG
1 CGTGTG
52410228 GAAACCCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (30 bp):
CGTGTGAGCTGATCGTATGTGGAACACGAC
Found at i:52411250 original size:20 final size:20
Alignment explanation
Indices: 52411235--52411273 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52411225 TTGTGCAATA
52411235 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
* *
52411255 AGTGGCATCAAAGTGCAAA
1 AGAGGCACCAAAGTGCAAA
52411274 TCCCATACAA
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:0.44, C:0.21, G:0.26, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:52417910 original size:53 final size:53
Alignment explanation
Indices: 52417833--52417939 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
52417823 AAAGTGATTG
52417833 ATTATGCTTTTGATCTGCCACAATTTAGTGTGACAAATTAAGCCATTTTCATT
1 ATTATGCTTTTGATCTGCCACAATTTAGTGTGACAAATTAAGCCATTTTCATT
52417886 ATTATGCTTTTGATCTGCCACAATTTAGTGTGACAAATTAAGCCATTTTCATT
1 ATTATGCTTTTGATCTGCCACAATTTAGTGTGACAAATTAAGCCATTTTCATT
52417939 A
1 A
52417940 CATAAGGAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (53 bp):
ATTATGCTTTTGATCTGCCACAATTTAGTGTGACAAATTAAGCCATTTTCATT
Found at i:52422912 original size:20 final size:19
Alignment explanation
Indices: 52422870--52422940 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
52422860 GCATCATCGA
**
52422870 TGCATAATAGGGGCACTGAG
1 TGCA-AATAGGGGCACAAAG
*
52422890 TGCAGATAGGGGCACAAATG
1 TGCAAATAGGGGCACAAA-G
* **
52422910 TGCAAACAGGGGCACCGTAG
1 TGCAAATAGGGGCA-CAAAG
52422930 TGCAAATAGGG
1 TGCAAATAGGG
52422941 ACATGAAGTG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 11 0.27
20 28 0.68
21 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.35, T:0.15
Consensus pattern (19 bp):
TGCAAATAGGGGCACAAAG
Found at i:52424914 original size:423 final size:424
Alignment explanation
Indices: 52424128--52424973 Score: 1460
Period size: 423 Copynumber: 2.0 Consensus size: 424
52424118 TAATATTATT
*
52424128 ATAACATATAAAACACATGTAAAATTAAAAGAAATTAAAGCTTTAACCGTCCACCCACTTAATAA
1 ATAACATATAAAACACATGTAAAATTAAAAGAAATTAAAGCTTTAACCGTCCACCCACTTAAGAA
52424193 TGGGTAATTTACCCATTAAGGCCATCCAAATATAATTCTTTAATCAATTAACACCTTTAAACTAA
66 TGGGTAATTTACCCATTAAGGCCATCCAAATATAATTCTTTAATCAATTAACACCTTTAAACTAA
*
52424258 TAGCGATTGATTTTTTCAACTTTTACGATTTAGTCCTTTTTGTTTAATTAAGAATCGAAACATTA
131 TAGCGATTGATTTTTTCAACTTTTACGATTTAGTCCTTTTTGCTTAATTAAGAATCGAAACATTA
52424323 AAATTTCTTAATGAAACTTAAATACAATCTTAATAACACTCTGTAAACATTTATAAAAATACTTA
196 AAATTTCTTAATGAAACTTAAATACAATCTTAATAACACTCTGTAAACATTTATAAAAATACTTA
* * * * *
52424388 TAGCTTAGTTTATAGAAACGAGGTACCGATACCTCATTTTTTAAAACCACTTGACTTTAGGGTCT
261 TAGCTCAGTTTATAGAAACGAGGTACCAATACATCATTTTCTAAAACCACTTAACTTTAGGGTCT
*
52424453 TACCACTTAAACTTAATTAATCATTCATATAACATAAATTACCATATTAAAAA-CATTTTTAAAA
326 TACCACTTAAACTTAATTAATCATTCATATAACATAAATTACAATATTAAAAACCATTTTTAAAA
*
52424517 CCATATTTGACTCGTGAATATTAAATAATAATAA
391 CCATATTTGACTCGTAAATATTAAATAATAATAA
*
52424551 ATAACATATAAAACACATGTAAAATTAAAAGAAATTAAAGCTTTAACTGTCCACCCACTTAAGAA
1 ATAACATATAAAACACATGTAAAATTAAAAGAAATTAAAGCTTTAACCGTCCACCCACTTAAGAA
* *
52424616 TGGGTAATTTACTCGTTAAGGCCATCCAAATATAATTCTTTAATCAATTAACACCTTTAAACTAA
66 TGGGTAATTTACCCATTAAGGCCATCCAAATATAATTCTTTAATCAATTAACACCTTTAAACTAA
* * * *
52424681 TAGCGATTGATTTTTTCAACTTTTATGGTTTAGTCCTTTTTGCTTAATTAAGTATTGAAACATTA
131 TAGCGATTGATTTTTTCAACTTTTACGATTTAGTCCTTTTTGCTTAATTAAGAATCGAAACATTA
* * *
52424746 AAATTTCTTAATGAAACTTAAATACAATCTTAATAACACTTTGTAAACATTTATAGAAATATTTA
196 AAATTTCTTAATGAAACTTAAATACAATCTTAATAACACTCTGTAAACATTTATAAAAATACTTA
* *
52424811 TGGCTCAGTTTATAGAAACGAGGTCCCAATACATCATTTTCTAAAACCACTTAACTTTAGGGTCT
261 TAGCTCAGTTTATAGAAACGAGGTACCAATACATCATTTTCTAAAACCACTTAACTTTAGGGTCT
* * *
52424876 TACTACTTGAACTTAATTAATCATTCATATAACATAAATTACAATATTAAAAACCTTTTTTAAAA
326 TACCACTTAAACTTAATTAATCATTCATATAACATAAATTACAATATTAAAAACCATTTTTAAAA
*
52424941 CCATATTTGACTCTTAAATATTAAATAATAATA
391 CCATATTTGACTCGTAAATATTAAATAATAATA
52424974 TTTATGAACT
Statistics
Matches: 397, Mismatches: 25, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
423 356 0.90
424 41 0.10
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (424 bp):
ATAACATATAAAACACATGTAAAATTAAAAGAAATTAAAGCTTTAACCGTCCACCCACTTAAGAA
TGGGTAATTTACCCATTAAGGCCATCCAAATATAATTCTTTAATCAATTAACACCTTTAAACTAA
TAGCGATTGATTTTTTCAACTTTTACGATTTAGTCCTTTTTGCTTAATTAAGAATCGAAACATTA
AAATTTCTTAATGAAACTTAAATACAATCTTAATAACACTCTGTAAACATTTATAAAAATACTTA
TAGCTCAGTTTATAGAAACGAGGTACCAATACATCATTTTCTAAAACCACTTAACTTTAGGGTCT
TACCACTTAAACTTAATTAATCATTCATATAACATAAATTACAATATTAAAAACCATTTTTAAAA
CCATATTTGACTCGTAAATATTAAATAATAATAA
Found at i:52425435 original size:17 final size:17
Alignment explanation
Indices: 52425413--52425448 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
52425403 CTTATAACTT
52425413 AAAAAGTTACGCTCTTA
1 AAAAAGTTACGCTCTTA
52425430 AAAAAGTTACGCTCTTA
1 AAAAAGTTACGCTCTTA
52425447 AA
1 AA
52425449 GGAATATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (17 bp):
AAAAAGTTACGCTCTTA
Found at i:52425711 original size:12 final size:12
Alignment explanation
Indices: 52425690--52425718 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52425680 CCAACCACTG
52425690 TTAG-TAATTTC
1 TTAGTTAATTTC
52425701 TTAGTTAATTTC
1 TTAGTTAATTTC
52425713 TTAGTT
1 TTAGTT
52425719 TTGTACTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (12 bp):
TTAGTTAATTTC
Found at i:52434455 original size:16 final size:16
Alignment explanation
Indices: 52434434--52434467 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
52434424 TTTGCATGTT
52434434 AGAGGAAAACCTTGGA
1 AGAGGAAAACCTTGGA
52434450 AGAGGAAAACCTTGGA
1 AGAGGAAAACCTTGGA
52434466 AG
1 AG
52434468 GTTATTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.32, T:0.12
Consensus pattern (16 bp):
AGAGGAAAACCTTGGA
Found at i:52440328 original size:19 final size:18
Alignment explanation
Indices: 52440300--52440339 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
52440290 AATCAAAACT
**
52440300 AAAATCAAATTCGAATTA
1 AAAATCAAATTAAAATTA
52440318 AAAACTCAAATTAAAATTA
1 AAAA-TCAAATTAAAATTA
52440337 AAA
1 AAA
52440340 CTAATGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATCAAATTAAAATTA
Found at i:52450313 original size:38 final size:38
Alignment explanation
Indices: 52450254--52450329 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
52450244 GTAACGGAAA
* * *
52450254 ATGTTAATGAGTGATTGATTTGTAACTTTTTGATAATG
1 ATGTTAATGAGTGACTAATTTGTAACTTTTCGATAATG
*
52450292 ATGTTAATG-GATGACTAATTTGTCACTTTTCGATAATG
1 ATGTTAATGAG-TGACTAATTTGTAACTTTTCGATAATG
52450330 TTAGTGACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.45
Consensus pattern (38 bp):
ATGTTAATGAGTGACTAATTTGTAACTTTTCGATAATG
Found at i:52450344 original size:31 final size:30
Alignment explanation
Indices: 52450303--52450370 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
52450293 TGTTAATGGA
*
52450303 TGACTAATTTGTCACTTTTCGATAATGTT-AG
1 TGACTGATTTGTCACTTTTCGA-AA-GTTGAG
* * *
52450334 TGACTGATTTGTTATTTTTTGAAAGTTGAG
1 TGACTGATTTGTCACTTTTCGAAAGTTGAG
52450364 TGACTGA
1 TGACTGA
52450371 ATTGAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.34
31 18 0.56
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.46
Consensus pattern (30 bp):
TGACTGATTTGTCACTTTTCGAAAGTTGAG
Found at i:52457851 original size:3 final size:3
Alignment explanation
Indices: 52457825--52457907 Score: 64
Period size: 3 Copynumber: 27.7 Consensus size: 3
52457815 TATTTTACTT
* *
52457825 TTA TTA TTT TTA TTTA TT- TCA TTA TTA TT- TTAA TTA TTA TTA -TA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
* * * *
52457869 TTA GTAA TTA TTA TTA TTC CTA TTA TTA TTA ATA TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
52457908 GCTACTACTA
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 5 0.08
3 50 0.81
4 7 0.11
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:52457866 original size:18 final size:18
Alignment explanation
Indices: 52457814--52457886 Score: 64
Period size: 18 Copynumber: 4.1 Consensus size: 18
52457804 CCCTCCTTTT
*
52457814 TTATTTTACTT-TTATTA
1 TTATTTTAATTATTATTA
*
52457831 -T-TTTTATTTATTTCATTA
1 TTATTTTAATTA-TT-ATTA
52457849 TTATTTTAATTATTATTA
1 TTATTTTAATTATTATTA
*
52457867 -TATTAGTAATTATTATTA
1 TTATT-TTAATTATTATTA
52457885 TT
1 TT
52457887 CCTATTATTA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 6 0.13
18 20 0.43
19 4 0.09
20 8 0.17
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (18 bp):
TTATTTTAATTATTATTA
Found at i:52461062 original size:26 final size:25
Alignment explanation
Indices: 52461009--52461064 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
52460999 GTGAATCCAA
*
52461009 CATATCAAAACATATGCATATTTGT
1 CATATCAAAACATATGCATATTGGT
52461034 CATATCCAAAACATACT-CAT-TTGGTT
1 CATAT-CAAAACATA-TGCATATTGG-T
52461060 CATAT
1 CATAT
52461065 GCTTCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
26 18 0.67
27 1 0.04
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (25 bp):
CATATCAAAACATATGCATATTGGT
Found at i:52469241 original size:26 final size:25
Alignment explanation
Indices: 52469188--52469243 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
52469178 GTGAATCCAA
*
52469188 CATATCAAAACATATGCATATTTGT
1 CATATCAAAACATATGCATATTGGT
52469213 CATATCCAAAACATACT-CAT-TTGGTT
1 CATAT-CAAAACATA-TGCATATTGG-T
52469239 CATAT
1 CATAT
52469244 GCTTCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
26 18 0.67
27 1 0.04
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (25 bp):
CATATCAAAACATATGCATATTGGT
Found at i:52472369 original size:5 final size:5
Alignment explanation
Indices: 52472359--52472391 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
52472349 GTAATTTGAT
*
52472359 AAATA AAATA AAATA CAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
52472392 AGTTATTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:52475853 original size:23 final size:23
Alignment explanation
Indices: 52475810--52475872 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
52475800 TTATTATTGG
*
52475810 TTATTTT-TTCTAGTTTGTTATCTCT
1 TTATTTTATT-TA-TTT-TTATCTAT
52475835 TTATTTTATTTATTTTTATCTAT
1 TTATTTTATTTATTTTTATCTAT
* *
52475858 TT-TCTTATTTGTTTT
1 TTATTTTATTTATTTT
52475873 CTCGGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 11 0.32
23 9 0.26
24 3 0.09
25 9 0.26
26 2 0.06
ACGTcount: A:0.14, C:0.08, G:0.05, T:0.73
Consensus pattern (23 bp):
TTATTTTATTTATTTTTATCTAT
Found at i:52479947 original size:18 final size:18
Alignment explanation
Indices: 52479924--52479960 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
52479914 TTATGAATTC
52479924 ACTATTAATCTCAATACA
1 ACTATTAATCTCAATACA
52479942 ACTATTAATCTCAATACA
1 ACTATTAATCTCAATACA
52479960 A
1 A
52479961 TCAGACTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (18 bp):
ACTATTAATCTCAATACA
Found at i:52488282 original size:15 final size:15
Alignment explanation
Indices: 52488256--52488315 Score: 53
Period size: 15 Copynumber: 4.4 Consensus size: 15
52488246 CTACAGAAGA
52488256 CACATGG-C-TGTGT
1 CACATGGCCATGTGT
*
52488269 CACACT-GCCGTGTGT
1 CACA-TGGCCATGTGT
52488284 CACATGGCCATGTGT
1 CACATGGCCATGTGT
52488299 --CA-GGCCATGTGT
1 CACATGGCCATGTGT
52488311 -ACATG
1 CACATG
52488316 AAATTTTTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
12 10 0.25
13 9 0.22
14 4 0.10
15 17 0.43
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.27
Consensus pattern (15 bp):
CACATGGCCATGTGT
Found at i:52489743 original size:17 final size:17
Alignment explanation
Indices: 52489721--52489753 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
52489711 CAATTCAGTC
52489721 CAAAATTCAT-ATTTTTA
1 CAAAATT-ATAATTTTTA
52489738 CAAAATTATAATTTTT
1 CAAAATTATAATTTTT
52489754 CCCCTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
CAAAATTATAATTTTTA
Found at i:52497992 original size:80 final size:82
Alignment explanation
Indices: 52497844--52498061 Score: 207
Period size: 80 Copynumber: 2.7 Consensus size: 82
52497834 TCTAGACCGA
* * ** * * * *
52497844 AATACCCTCGAT-GGGTAAAATGACTGAAATGCCCCCATACGGTAAAATGACCGAAATACCCCCG
1 AATACCCTCGATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACTGTAATACCCCCA
*
52497908 TAGGGTAGAAT-A-C-T
66 TAGGGTAAAATGATCGT
* *
52497922 AAACTACCCTC-ATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAGTGACTGTAATGCCCC
1 -AA-TACCCTCGATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACTGTAATACCCC
*
52497986 TATAGGGTAAAATGATCGT
64 CATAGGGTAAAATGATCGT
* * * * *
52498005 AATGCCC-CTATAGGGTAAAATTACCGTAATAG-CCTTGTAGGGTAAAATAACTGTAAT
1 AATACCCTCGATAGGGTAAAATGACCGTAAT-GCCCCTGTAGGGTAAAATGACTGTAAT
52498062 TCCTGGTGGG
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
79 4 0.03
80 59 0.51
81 47 0.41
82 4 0.03
83 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (82 bp):
AATACCCTCGATAGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACTGTAATACCCCCA
TAGGGTAAAATGATCGT
Found at i:52498032 original size:27 final size:27
Alignment explanation
Indices: 52497856--52498061 Score: 170
Period size: 27 Copynumber: 7.7 Consensus size: 27
52497846 TACCCTCGAT
* * *
52497856 GGGTAAAATGACTGAAATGCCCCCATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * * **
52497883 CGGTAAAATGACCGAAATACCCCCGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* *
52497910 GGGTAGAAT-A-C-TAAACT-ACCCTCATA
1 GGGTAAAATGACCGT-AA-TGCCCCT-ATA
*
52497936 GGGTAAAATGACCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* *
52497963 GGGTAAAGTGACTGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
*
52497990 GGGTAAAATGATCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * *
52498017 GGGTAAAATTACCGTAATAG-CCTTGTA
1 GGGTAAAATGACCGTAAT-GCCCCTATA
* *
52498044 GGGTAAAATAACTGTAAT
1 GGGTAAAATGACCGTAAT
52498062 TCCTGGTGGG
Statistics
Matches: 146, Mismatches: 25, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
25 6 0.04
26 12 0.08
27 119 0.82
28 8 0.05
29 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTATA
Found at i:52498159 original size:24 final size:24
Alignment explanation
Indices: 52498101--52498182 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
52498091 TTCGAGGTCA
* * * *
52498101 AATGATTGTTTTGTCTGTG-GTTA
1 AATGACTGATTTGTCTGTGATTTG
*
52498124 AATGACTAATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
* *
52498148 TATGACTGATTTGTGTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
52498172 AATGACTGATT
1 AATGACTGATT
52498183 CTGAGCATTG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 18 0.38
24 27 0.56
25 3 0.06
ACGTcount: A:0.21, C:0.06, G:0.26, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:52498334 original size:26 final size:26
Alignment explanation
Indices: 52498296--52498349 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
52498286 GCTTTGCCAC
52498296 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* * *
52498322 ATACTGTTGCTGGTAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
52498348 AT
1 AT
52498350 GCTACCGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:52498398 original size:32 final size:33
Alignment explanation
Indices: 52498356--52498566 Score: 152
Period size: 32 Copynumber: 6.6 Consensus size: 33
52498346 CGATGCTACC
* *
52498356 GATGGATTTGTGCCGGTCATAGT-ACCGTTACT
1 GATGGCTTTGTGCCGATCATAGTCACCGTTACT
* * *
52498388 GATGGCTTTGTGCCGATCATA-TTACCATTACC
1 GATGGCTTTGTGCCGATCATAGTCACCGTTACT
* * * * **
52498420 AATGGCTGTGTGCTGATCAT-TTCACTATTACT
1 GATGGCTTTGTGCCGATCATAGTCACCGTTACT
* * * *
52498452 AATGG-TTGTGTACCGATCATA--CAACTGCTACT
1 GATGGCTT-TGTGCCGATCATAGTC-ACCGTTACT
* *
52498484 GATGGCTTTGTGTCGATTAT-GTCACCGTTACT
1 GATGGCTTTGTGCCGATCATAGTCACCGTTACT
* *
52498516 GATGG-TTGTGTGCCGATCATA-TCACTGCTACT
1 GATGGCTT-TGTGCCGATCATAGTCACCGTTACT
*
52498548 GATGGCTTTGTGCCAATCA
1 GATGGCTTTGTGCCGATCA
52498567 CATTACTGTA
Statistics
Matches: 142, Mismatches: 26, Indels: 22
0.75 0.14 0.12
Matches are distributed among these distances:
31 5 0.04
32 132 0.93
33 5 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (33 bp):
GATGGCTTTGTGCCGATCATAGTCACCGTTACT
Found at i:52498489 original size:64 final size:65
Alignment explanation
Indices: 52498421--52498560 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 65
52498411 ACCATTACCA
* * *
52498421 ATGGCTGTGTGCT-GATCATTTCACTATTACTAATGGTTGTGTACCGATCATA-CAACTGCTACT
1 ATGGCTTTGTGCTCGATCATGTCACCATTACTAATGGTTGTGTACCGATCATATC-ACTGCTACT
52498484 G
65 G
* * * *
52498485 ATGGCTTTGTG-TCGATTATGTCACCGTTACTGATGGTTGTGTGCCGATCATATCACTGCTACTG
1 ATGGCTTTGTGCTCGATCATGTCACCATTACTAATGGTTGTGTACCGATCATATCACTGCTACTG
52498549 ATGGCTTTGTGC
1 ATGGCTTTGTGC
52498561 CAATCACATT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.02
64 64 0.97
65 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (65 bp):
ATGGCTTTGTGCTCGATCATGTCACCATTACTAATGGTTGTGTACCGATCATATCACTGCTACTG
Found at i:52498622 original size:22 final size:22
Alignment explanation
Indices: 52498578--52498624 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
52498568 ATTACTGTAC
* **
52498578 TTATAGCTTGTAGCCATTTTGT
1 TTATAGCTTATAGCCATCCTGT
*
52498600 TTATAGCTTATAGCTATCCTGT
1 TTATAGCTTATAGCCATCCTGT
52498622 TTA
1 TTA
52498625 CGACTCTTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (22 bp):
TTATAGCTTATAGCCATCCTGT
Found at i:52498665 original size:26 final size:26
Alignment explanation
Indices: 52498636--52498687 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
52498626 GACTCTTAGC
* *
52498636 CATTCTGACTACTGGAAGCTCTGCTG
1 CATTATGACTACTGGAAGCTATGCTG
* *
52498662 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGAAGCTATGCTG
52498688 TGATATTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTGGAAGCTATGCTG
Found at i:52504449 original size:106 final size:106
Alignment explanation
Indices: 52504264--52504466 Score: 397
Period size: 106 Copynumber: 1.9 Consensus size: 106
52504254 ATTGCTGCAA
52504264 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
1 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
52504329 GTTGTTTTAATGTAAATAAATCAATATATATAATATGTTGT
66 GTTGTTTTAATGTAAATAAATCAATATATATAATATGTTGT
52504370 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
1 TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
*
52504435 GTTGTTTTAATGTAAATGAATCAATATATATA
66 GTTGTTTTAATGTAAATAAATCAATATATATA
52504467 TGATTATGTC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (106 bp):
TTTAGTCAGGTAAGTTTGTATGAACTATAATCACTTAAATGTTGATTAAATTAAATGTTTAATGT
GTTGTTTTAATGTAAATAAATCAATATATATAATATGTTGT
Found at i:52504775 original size:20 final size:20
Alignment explanation
Indices: 52504760--52504797 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
52504750 AAAGGAATGG
52504760 TAAGTGTACAAAAGGAACCA
1 TAAGTGTACAAAAGGAACCA
52504780 TAAGTGTACAAAAGGAAC
1 TAAGTGTACAAAAGGAAC
52504798 TATGTCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.13, G:0.21, T:0.16
Consensus pattern (20 bp):
TAAGTGTACAAAAGGAACCA
Found at i:52505448 original size:24 final size:24
Alignment explanation
Indices: 52505421--52505471 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
52505411 AAGTTTATGC
52505421 TAAGAAAATG-GAATGGAAAGTAAG
1 TAAGAAAATGAG-ATGGAAAGTAAG
* *
52505445 TAAGTAAATGAGGTGGAAAGTAAG
1 TAAGAAAATGAGATGGAAAGTAAG
52505469 TAA
1 TAA
52505472 ATGGAATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.29, T:0.20
Consensus pattern (24 bp):
TAAGAAAATGAGATGGAAAGTAAG
Found at i:52512955 original size:20 final size:20
Alignment explanation
Indices: 52512930--52513021 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 20
52512920 TACTAAATAA
52512930 TAAAATAATAAAATATTATT
1 TAAAATAATAAAATATTATT
*
52512950 TAAAATCAAATTAAAATATTA-A
1 TAAAAT--AA-TAAAATATTATT
* **
52512972 TAAACTAATATTTATTTATTTAATT
1 TAAAATAATA---AAATA-TT-ATT
52512997 TAAAATAATAAAATATTATT
1 TAAAATAATAAAATATTATT
52513017 TAAAA
1 TAAAA
52513022 ATCAAATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
19 2 0.04
20 16 0.29
21 2 0.04
22 13 0.24
23 12 0.22
24 1 0.02
25 9 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATAATAAAATATTATT
Found at i:52513065 original size:67 final size:67
Alignment explanation
Indices: 52512930--52513066 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 67
52512920 TACTAAATAA
52512930 TAAAATAATAAAATATTATTTAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATTTAA
1 TAAAATAATAAAATATTATTTAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATTTAA
52512995 TT
66 TT
52512997 TAAAATAATAAAATATTATTTAAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATTT-
1 TAAAATAATAAAATATTATTT-AAAATCAAATTAAAATATTAATAAACTAATATTTATTTATTTA
52513061 ATT
65 ATT
52513064 TAA
1 TAA
52513067 TCTAAAATAT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 27 0.39
68 42 0.61
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (67 bp):
TAAAATAATAAAATATTATTTAAAATCAAATTAAAATATTAATAAACTAATATTTATTTATTTAA
TT
Found at i:52514500 original size:49 final size:49
Alignment explanation
Indices: 52514428--52514528 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
52514418 CTCATTTTCT
* * *
52514428 CGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCA-TATAC
1 CGATGCCATAGCCCAACTATGGTCCTACATGGAATCACATATCACT-TAC
* *
52514477 CGATGCCATAGCCCAGCTATGGTCCTATATGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCCTACATGGAATCACATATCACTTAC
52514526 CGA
1 CGA
52514529 AAGTACTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 45 0.98
50 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCCTACATGGAATCACATATCACTTAC
Found at i:52515350 original size:33 final size:33
Alignment explanation
Indices: 52515308--52515530 Score: 161
Period size: 33 Copynumber: 6.4 Consensus size: 33
52515298 ATAGATTCAA
*
52515308 CACTTAGCAACCACCAGTGATTCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
52515341 CACTTAGCAACCCCTGTCACATTCAATGATACGGTGGAATCAG
1 CACTTAGCAA---C---CAC---CAATGATTCGG-GGAATCAG
*
52515384 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
*
52515417 CACTTAGCAACC-CC-----TTGGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
* * *
52515444 CACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAG
1 CACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAATCAG
*
52515486 CACTTAGCAACCACCAATGAATCGGGGAATCAG
1 CACTTAGCAACCACCAATGATTCGGGGAATCAG
52515519 CACTTAGCAACC
1 CACTTAGCAACC
52515531 CCTTAGGGAA
Statistics
Matches: 153, Mismatches: 12, Indels: 50
0.71 0.06 0.23
Matches are distributed among these distances:
27 21 0.14
28 2 0.01
29 1 0.01
31 1 0.01
32 2 0.01
33 50 0.33
34 13 0.08
36 2 0.01
37 3 0.02
38 1 0.01
39 5 0.03
40 1 0.01
41 6 0.04
42 27 0.18
43 18 0.12
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (33 bp):
CACTTAGCAACCACCAATGATTCGGGGAATCAG
Found at i:52515501 original size:102 final size:102
Alignment explanation
Indices: 52515331--52515561 Score: 403
Period size: 102 Copynumber: 2.3 Consensus size: 102
52515321 CCAGTGATTC
*
52515331 GGGGAATCAGCACTTAGCAA-CCCCTGTCACATTCAATGATACGGTGGAATCAGCACTTAGCAAC
1 GGGGAATCAGCACTTAGCAACCCCCT-TCACATTCAATAATACGGTGGAATCAGCACTTAGCAAC
52515395 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
65 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
*
52515433 GGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAA-AATACGGTGGAATCAGCACTTAGCAAC
1 -GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAAC
52515497 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
65 CACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
*
52515535 AGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
52515562 TATATCCAAA
Statistics
Matches: 124, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
101 26 0.21
102 64 0.52
103 29 0.23
104 5 0.04
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAATAATACGGTGGAATCAGCACTTAGCAACC
ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
Found at i:52515662 original size:51 final size:51
Alignment explanation
Indices: 52515576--52515774 Score: 230
Period size: 51 Copynumber: 4.0 Consensus size: 51
52515566 TCCAAAGATA
* * *
52515576 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
* * *
52515627 CCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTAT
* * * *
52515678 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTAT
*
52515728 CTGGTACACGTA--AGCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
52515775 TTCACTTTTA
Statistics
Matches: 124, Mismatches: 18, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
47 4 0.03
48 28 0.23
50 12 0.10
51 77 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTAT
Found at i:52515790 original size:99 final size:99
Alignment explanation
Indices: 52515583--52515766 Score: 266
Period size: 102 Copynumber: 1.8 Consensus size: 99
52515573 ATACCGGTTC
*
52515583 ACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAG-AGCCTAC
*
52515648 ACATAGTACTACACACGTGATCGAAGCTATCCGGT
65 ACATAGTACTACACACGTGATCCAAGCTATCCGGT
* *
52515683 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTA-AGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGAGCCT
*
52515745 GCACATAGTACTACACACGTGA
63 ACACATAGTACTACACACGTGA
52515767 CCATCACTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
99 26 0.34
100 1 0.01
101 11 0.14
102 35 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGAGCCTACA
CATAGTACTACACACGTGATCCAAGCTATCCGGT
Found at i:52540063 original size:2 final size:2
Alignment explanation
Indices: 52540056--52540087 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
52540046 TGGTTTCATG
52540056 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
52540088 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:52543131 original size:43 final size:44
Alignment explanation
Indices: 52543083--52543170 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
52543073 AAACTTCAAA
52543083 TTTTGAAGTCAAGCTTTAAAGTT-TAAGCTTCAAATTTAAGTTT
1 TTTTGAAGTCAAGCTTTAAAGTTGTAAGCTTCAAATTTAAGTTT
52543126 TTTTGAAGTCAAGCTTTAAAGTTGTAAGCTTCAAATTTAAGTTT
1 TTTTGAAGTCAAGCTTTAAAGTTGTAAGCTTCAAATTTAAGTTT
52543170 T
1 T
52543171 GAAGTTTGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 23 0.52
44 21 0.48
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (44 bp):
TTTTGAAGTCAAGCTTTAAAGTTGTAAGCTTCAAATTTAAGTTT
Found at i:52543598 original size:23 final size:23
Alignment explanation
Indices: 52543572--52543616 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52543562 ATTAAAAAAA
*
52543572 TAAAAGTATAAATTGTATATATT
1 TAAAAGTATAAATTATATATATT
* *
52543595 TAAAATTTTAAATTATATATAT
1 TAAAAGTATAAATTATATATAT
52543617 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAAGTATAAATTATATATATT
Found at i:52543664 original size:18 final size:15
Alignment explanation
Indices: 52543641--52543683 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 15
52543631 TAAATATTAG
52543641 ATAAAAAAGTTTATAAAA
1 ATAAAAAA-TTT-T-AAA
52543659 ATAAAATAATTTTAAA
1 ATAAAA-AATTTTAAA
52543675 ATAAAAAAT
1 ATAAAAAAT
52543684 ATGAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.12
16 9 0.38
17 1 0.04
18 9 0.38
19 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (15 bp):
ATAAAAAATTTTAAA
Found at i:52545257 original size:6 final size:6
Alignment explanation
Indices: 52545246--52545270 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52545236 ACCGTTTTCC
52545246 CCAATT CCAATT CCAATT CCAATT C
1 CCAATT CCAATT CCAATT CCAATT C
52545271 ATATGGTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (6 bp):
CCAATT
Found at i:52547117 original size:2 final size:2
Alignment explanation
Indices: 52547110--52547143 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
52547100 TTCGCGCATG
* *
52547110 CA CA CA CA GA CA CA CA CA GA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
52547144 TATATATGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.44, G:0.06, T:0.00
Consensus pattern (2 bp):
CA
Found at i:52547125 original size:10 final size:10
Alignment explanation
Indices: 52547110--52547143 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
52547100 TTCGCGCATG
52547110 CACACACAGA
1 CACACACAGA
52547120 CACACACAGA
1 CACACACAGA
*
52547130 CACACACACA
1 CACACACAGA
52547140 CACA
1 CACA
52547144 TATATATGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.50, C:0.44, G:0.06, T:0.00
Consensus pattern (10 bp):
CACACACAGA
Found at i:52551841 original size:16 final size:16
Alignment explanation
Indices: 52551820--52551851 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52551810 TATTTATTTA
*
52551820 CAAAAATTATCTAAGT
1 CAAAAATTATATAAGT
52551836 CAAAAATTATATAAGT
1 CAAAAATTATATAAGT
52551852 AAATGAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (16 bp):
CAAAAATTATATAAGT
Found at i:52552634 original size:46 final size:47
Alignment explanation
Indices: 52552582--52552675 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
52552572 ATTTCCTATT
* * *
52552582 TCTATTTTGCATATTTGTTATTCTCTTT-TCTTCCCATATTTGATTC
1 TCTATTTTGCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
* * *
52552628 TCTATTTTTCATATATGTTAGTATCTTTCTTTTCTCATATTTGATTC
1 TCTATTTTGCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
52552675 T
1 T
52552676 TGTTTTCCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
46 24 0.59
47 17 0.41
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (47 bp):
TCTATTTTGCATATATGTTAGTATCTTTCTCTTCCCATATTTGATTC
Found at i:52552643 original size:23 final size:24
Alignment explanation
Indices: 52552582--52552643 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
52552572 ATTTCCTATT
* *
52552582 TCTATTTTGCATAT-TTGTTATTC
1 TCTATTTTTCATATATTGTGATTC
**
52552605 TCT-TTTCTTCCCATATT-TGATTC
1 TCTATTT-TTCATATATTGTGATTC
52552628 TCTATTTTTCATATAT
1 TCTATTTTTCATATAT
52552644 GTTAGTATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
22 3 0.10
23 22 0.73
24 5 0.17
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.60
Consensus pattern (24 bp):
TCTATTTTTCATATATTGTGATTC
Found at i:52552683 original size:106 final size:107
Alignment explanation
Indices: 52552475--52552673 Score: 276
Period size: 106 Copynumber: 1.9 Consensus size: 107
52552465 AATACATATC
** * * *
52552475 TCTATTTTTTATATATGTTATTCTCTTTCCTTTCTCATATTTGATTCTTTATTTTCCATGTATGT
1 TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
* * *
52552540 TATTCTCTTTGTTTTCCAATATTTGATTTTCCATTTCCTATT
66 TAGTATCTTTCTTTTCCAATATTTGATTTTCCATTTCCTATT
* * *
52552582 TCTATTTTGCATATTTGTTATTCTCTTTTC-TTCCCATATTTGATTCTCTATTTTTCATATATGT
1 TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
52552646 TAGTATCTTTCTTTTCTC-ATATTTGATT
66 TAGTATCTTTCTTTTC-CAATATTTGATT
52552674 CTTGTTTTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
106 53 0.66
107 27 0.34
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (107 bp):
TCTATTTTGCATATATGTTATTCTCTTTCCTTTCCCATATTTGATTCTCTATTTTCCATATATGT
TAGTATCTTTCTTTTCCAATATTTGATTTTCCATTTCCTATT
Found at i:52552807 original size:19 final size:19
Alignment explanation
Indices: 52552760--52552809 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
52552750 CCCAGATTTG
* *
52552760 TCTTTCTCTCTCTCATCCC
1 TCTTTCTTTCTCTCATACC
* * *
52552779 TCTATATTTCTCTCATATC
1 TCTTTCTTTCTCTCATACC
52552798 TCTTTCTTTCTC
1 TCTTTCTTTCTC
52552810 ACTCTCATCT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.10, C:0.36, G:0.00, T:0.54
Consensus pattern (19 bp):
TCTTTCTTTCTCTCATACC
Found at i:52562546 original size:20 final size:20
Alignment explanation
Indices: 52562521--52562561 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
52562511 ATAGTTCTGG
*
52562521 AGTTGAAACTGTAGACTTTC
1 AGTTGAAACTATAGACTTTC
52562541 AGTTGAAACTATAGACTTTC
1 AGTTGAAACTATAGACTTTC
52562561 A
1 A
52562562 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (20 bp):
AGTTGAAACTATAGACTTTC
Found at i:52564645 original size:23 final size:23
Alignment explanation
Indices: 52564605--52564861 Score: 282
Period size: 23 Copynumber: 11.0 Consensus size: 23
52564595 TCTACCCTGT
*
52564605 TTGGACAGC-TCTTATACATCAAA
1 TTGGACAGCAT-TTATACACCAAA
* *
52564628 TTGGATAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACC-AAA
52564652 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * *
52564675 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
52564698 TTGGATAGCATTTTTTACACCAAAA
1 TTGGACAGCA-TTTATACACC-AAA
* *
52564723 CTAGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * * *
52564746 TTGGGCAGTATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
*
52564769 TTGGACAGCATTTTTACACCAAAA
1 TTGGACAGCATTTATACACC-AAA
52564793 TTGGACAGCATTTATACACCAAA
1 TTGGACAGCATTTATACACCAAA
* * *
52564816 TTGGGCAGCATATATATACCAAA
1 TTGGACAGCATTTATACACCAAA
* *
52564839 TGGGACAGCATTTTTACACCAAA
1 TTGGACAGCATTTATACACCAAA
52564862 ATTCACTTGA
Statistics
Matches: 192, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
23 122 0.64
24 60 0.31
25 10 0.05
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (23 bp):
TTGGACAGCATTTATACACCAAA
Found at i:52564822 original size:70 final size:70
Alignment explanation
Indices: 52564624--52564864 Score: 419
Period size: 70 Copynumber: 3.4 Consensus size: 70
52564614 TCTTATACAT
*
52564624 CAAATTGGATAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
1 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
52564689 TATAC
66 TATAC
* * * *
52564694 CAAATTGGATAGCATTTTTTACACCAAAACTAGACAGCATTTATACACCAAATTGGGCAGTATAT
1 CAAATTGGACAGCA-TTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATAT
52564759 ATATAC
65 ATATAC
52564765 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
1 CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
52564830 TATAC
66 TATAC
*
52564835 CAAATGGGACAGCATTTTTACACCAAAATT
1 CAAATTGGACAGCATTTTTACACCAAAATT
52564865 CACTTGAATC
Statistics
Matches: 162, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
70 96 0.59
71 66 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (70 bp):
CAAATTGGACAGCATTTTTACACCAAAATTGGACAGCATTTATACACCAAATTGGGCAGCATATA
TATAC
Found at i:52567898 original size:15 final size:15
Alignment explanation
Indices: 52567878--52567910 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
52567868 CGATATATGT
52567878 AAGACTTAGAAAACA
1 AAGACTTAGAAAACA
52567893 AAGACTTAGAAAACA
1 AAGACTTAGAAAACA
52567908 AAG
1 AAG
52567911 TTAAGAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGACTTAGAAAACA
Found at i:52568946 original size:11 final size:12
Alignment explanation
Indices: 52568895--52568947 Score: 65
Period size: 12 Copynumber: 4.5 Consensus size: 12
52568885 ATAATGAATG
52568895 GTTTTTATTCAA
1 GTTTTTATTCAA
52568907 GTTTTTCATTC-A
1 GTTTTT-ATTCAA
*
52568919 GTTTTTATTCAT
1 GTTTTTATTCAA
*
52568931 CTTTTTATT-AA
1 GTTTTTATTCAA
52568942 GTTTTT
1 GTTTTT
52568948 CTTTAGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 10 0.29
12 21 0.60
13 4 0.11
ACGTcount: A:0.19, C:0.09, G:0.08, T:0.64
Consensus pattern (12 bp):
GTTTTTATTCAA
Found at i:52569025 original size:47 final size:47
Alignment explanation
Indices: 52568971--52569063 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
52568961 TTTCTTTTAT
52568971 TTCGTTCTTTGCGGGGATCATATTGTAGATCGCCATACTCTTCAACA
1 TTCGTTCTTTGCGGGGATCATATTGTAGATCGCCATACTCTTCAACA
*
52569018 TTCGTTCTTTGTGGGGATCATATTGTAGATCGCCATACTCTTCAAC
1 TTCGTTCTTTGCGGGGATCATATTGTAGATCGCCATACTCTTCAAC
52569064 GGATTATTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (47 bp):
TTCGTTCTTTGCGGGGATCATATTGTAGATCGCCATACTCTTCAACA
Found at i:52577588 original size:27 final size:26
Alignment explanation
Indices: 52577529--52577602 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
52577519 AGTTTGACAG
* *
52577529 GACGTTAAACACGGGTTGGTCCCATAA
1 GACGTTAAACACGGG-TAGTCCAATAA
**
52577556 GACGTTAAACACGGGATAGTCCAATGG
1 GACGTTAAACACGGG-TAGTCCAATAA
*
52577583 GCCGTTAAACACAGGGTAGT
1 GACGTTAAACAC-GGGTAGT
52577603 TCGTCAGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.20
Consensus pattern (26 bp):
GACGTTAAACACGGGTAGTCCAATAA
Found at i:52580086 original size:25 final size:25
Alignment explanation
Indices: 52580032--52580086 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 25
52580022 GGCTCGGCCC
* * *
52580032 ATTTTTAAAATAAACATTAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAA-T
52580058 ATTTTAAAAATAAAAAAATAAAAAA-
1 ATTTTAAAAAT-AAAAAATAAAAAAT
52580083 ATTT
1 ATTT
52580087 ATTTTAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.16
26 10 0.40
27 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTTAAAAATAAAAAATAAAAAAT
Found at i:52580095 original size:28 final size:25
Alignment explanation
Indices: 52580034--52580095 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 25
52580024 CTCGGCCCAT
* *
52580034 TTTTAAAATAAACATTAAAAAATTA
1 TTTTAAAATAAAAATAAAAAAATTA
52580059 TTTTAAAAATAAAAAAATAAAAAAATTTA
1 TTTT-AAAAT--AAAAATAAAAAAA-TTA
52580088 TTTTAAAA
1 TTTTAAAA
52580096 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 4 0.13
26 5 0.16
28 15 0.48
29 7 0.23
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTTAAAATAAAAATAAAAAAATTA
Found at i:52582171 original size:263 final size:263
Alignment explanation
Indices: 52581704--52582229 Score: 1043
Period size: 263 Copynumber: 2.0 Consensus size: 263
52581694 AGCCCTATGG
52581704 GCCATTACCCAATTCACATATCAATACAGACTATTCTATGCCGTCACCCTTTGACTGGTTAAGAT
1 GCCATTACCCAATTCACATATCAATACAGACTATTCTATGCCGTCACCCTTTGACTGGTTAAGAT
52581769 AATTTGAACATCAGAATCTCACAAACGGCTTAATTGGTTCTGAGTACCTATCCGATTTCATCCCA
66 AATTTGAACATCAGAATCTCACAAACGGCTTAATTGGTTCTGAGTACCTATCCGATTTCATCCCA
52581834 TTTCAAAAACAGATCCAGCCACCAGTTCAATTTTAAAACATTGATATTTTTCAAGGTAAAAATCA
131 TTTCAAAAACAGATCCAGCCACCAGTTCAATTTTAAAACATTGATATTTTTCAAGGTAAAAATCA
52581899 TGTATGAAGAGAAATTTCCTTTTATTACAAACAGATATGTATATTTCTCTTTTCCACTAATAAAT
196 TGTATGAAGAGAAATTTCCTTTTATTACAAACAGATATGTATATTTCTCTTTTCCACTAATAAAT
52581964 ATA
261 ATA
52581967 GCCATTACCCAATTCACATATCAATACAGACTATTCTATGCCGTCACCCTTTGACTGGTTAAGAT
1 GCCATTACCCAATTCACATATCAATACAGACTATTCTATGCCGTCACCCTTTGACTGGTTAAGAT
*
52582032 AATTTGAACATCAGAATCTCACAAACGGCTTAATTGGTTCTGAGTACCTATCCGATTTCATCCTA
66 AATTTGAACATCAGAATCTCACAAACGGCTTAATTGGTTCTGAGTACCTATCCGATTTCATCCCA
52582097 TTTCAAAAACAGATCCAGCCACCAGTTCAATTTTAAAACATTGATATTTTTCAAGGTAAAAATCA
131 TTTCAAAAACAGATCCAGCCACCAGTTCAATTTTAAAACATTGATATTTTTCAAGGTAAAAATCA
52582162 TGTATGAAGAGAAATTTCCTTTTATTACAAACAGATATGTATATTTCTCTTTTCCACTAATAAAT
196 TGTATGAAGAGAAATTTCCTTTTATTACAAACAGATATGTATATTTCTCTTTTCCACTAATAAAT
52582227 ATA
261 ATA
52582230 ATTTTAGCCA
Statistics
Matches: 262, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
263 262 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (263 bp):
GCCATTACCCAATTCACATATCAATACAGACTATTCTATGCCGTCACCCTTTGACTGGTTAAGAT
AATTTGAACATCAGAATCTCACAAACGGCTTAATTGGTTCTGAGTACCTATCCGATTTCATCCCA
TTTCAAAAACAGATCCAGCCACCAGTTCAATTTTAAAACATTGATATTTTTCAAGGTAAAAATCA
TGTATGAAGAGAAATTTCCTTTTATTACAAACAGATATGTATATTTCTCTTTTCCACTAATAAAT
ATA
Found at i:52582393 original size:3 final size:3
Alignment explanation
Indices: 52582379--52582421 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
52582369 CTAAATCTGG
*
52582379 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
52582422 CACATGCTAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:52594473 original size:20 final size:20
Alignment explanation
Indices: 52594444--52594488 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
52594434 AAAAGAAACC
52594444 TCTA-CAACTCTACAAGGGT
1 TCTACCAACTCTACAAGGGT
52594463 TCTACCAACTCTACAAGGGT
1 TCTACCAACTCTACAAGGGT
52594483 TCTACC
1 TCTACC
52594489 TTTTCTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (20 bp):
TCTACCAACTCTACAAGGGT
Found at i:52595129 original size:23 final size:23
Alignment explanation
Indices: 52595088--52595131 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
52595078 TATTTTTAAA
*
52595088 GTTTGTTTATGGTTTGGGTTTGG
1 GTTTGTTTAAGGTTTGGGTTTGG
52595111 GTTT-TTTAAGGTTTAGGGTTT
1 GTTTGTTTAAGGTTT-GGGTTT
52595132 TTAAGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.00, G:0.34, T:0.57
Consensus pattern (23 bp):
GTTTGTTTAAGGTTTGGGTTTGG
Found at i:52595771 original size:30 final size:30
Alignment explanation
Indices: 52595714--52595772 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
52595704 GGAGAAAAGT
* * * *
52595714 TGGAGGTTGAGTTAGGGTGATAGCGGTAGC
1 TGGAGGTTGAGTCAAGGCGATACCGGTAGC
52595744 TGGAGGTTGAGTCAAGGCGATACCGGTAG
1 TGGAGGTTGAGTCAAGGCGATACCGGTAG
52595773 TATTTATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.10, G:0.44, T:0.24
Consensus pattern (30 bp):
TGGAGGTTGAGTCAAGGCGATACCGGTAGC
Found at i:52615854 original size:15 final size:16
Alignment explanation
Indices: 52615803--52615855 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
52615793 TACAAATCCC
52615803 TTTAAAAGTTTTATAA
1 TTTAAAAGTTTTATAA
* *
52615819 -ATAATAAGTTTTACCAA
1 TTTAA-AAGTTTTA-TAA
52615836 TTTAAAA-TTTTATAA
1 TTTAAAAGTTTTATAA
52615851 TTTAA
1 TTTAA
52615856 CTTTGGTCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 10 0.33
16 13 0.43
17 4 0.13
18 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTAAAAGTTTTATAA
Found at i:52618506 original size:22 final size:23
Alignment explanation
Indices: 52618467--52618511 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
52618457 AAATTAAATC
52618467 TCTAAGATAACAGAATCATATCT
1 TCTAAGATAACAGAATCATATCT
* *
52618490 TCTAAGATTACA-TATCATATCT
1 TCTAAGATAACAGAATCATATCT
52618512 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.36
Consensus pattern (23 bp):
TCTAAGATAACAGAATCATATCT
Found at i:52618514 original size:19 final size:19
Alignment explanation
Indices: 52618490--52618545 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
52618480 AATCATATCT
52618490 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
52618509 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
52618530 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
52618546 CTCAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 14 0.44
21 18 0.56
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:52618527 original size:21 final size:21
Alignment explanation
Indices: 52618501--52618544 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
52618491 CTAAGATTAC
52618501 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
52618522 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
52618543 AT
1 AT
52618545 CCTCAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:52618953 original size:44 final size:45
Alignment explanation
Indices: 52618774--52619075 Score: 128
Period size: 44 Copynumber: 6.9 Consensus size: 45
52618764 TTGCAACTGC
* * * *
52618774 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACT
1 AGGGAGATAAGATCTGACAATCTTCAATCTACTCCACTGCTGCCT
* * * *
52618818 AGGGAGATAGGAT-T-ACTGA-CTTCAATGTACTCCACTG-TAACCAT
1 AGGGAGATAAGATCTGAC-AATCTTCAATCTACTCCACTGCT-GCC-T
* * * * * * * *
52618862 AGGGAGGTAAAATC-CACCATATTCGATCTACTCCACTACTGCTT
1 AGGGAGATAAGATCTGACAATCTTCAATCTACTCCACTGCTGCCT
* *
52618906 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGATAAGATCTGACAATCTTCAATCTACTCCACTGCTGCCT
* * * * *
52618950 AGGGA-AGT-AGAAT-T-ACTAGCTTCAATGTACTCCACTG-TAACCAC
1 AGGGAGA-TAAG-ATCTGACAATCTTCAATCTACTCCACTGCT-GCC-T
* * * * * * ** * *
52618994 ATGGAGGTAAAATCTG-CCATCTTCGATCTTCTCCACCACTTCTT
1 AGGGAGATAAGATCTGACAATCTTCAATCTACTCCACTGCTGCCT
* *
52619038 AGGGAGATAAGTTCTGA-AATCTTCAATCTATTCCACTG
1 AGGGAGATAAGATCTGACAATCTTCAATCTACTCCACTG
52619076 TAATGCCAAA
Statistics
Matches: 182, Mismatches: 56, Indels: 40
0.65 0.20 0.14
Matches are distributed among these distances:
42 3 0.02
43 41 0.23
44 100 0.55
45 36 0.20
46 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
AGGGAGATAAGATCTGACAATCTTCAATCTACTCCACTGCTGCCT
Found at i:52619019 original size:132 final size:132
Alignment explanation
Indices: 52618774--52619076 Score: 432
Period size: 132 Copynumber: 2.3 Consensus size: 132
52618764 TTGCAACTGC
* * * *
52618774 AGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTACTGAC
1 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGACTAGGGAGATAGAATTACTGAC
* *
52618838 TTCAATGTACTCCACTGTAACCATAGGGAGGTAAAATCCACCATATTCGATCTACTCCACTACTG
65 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATATTCGATCTACTCCACCACTG
52618903 CTT
130 CTT
*
52618906 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCTAGGGA-AGTAGAATTACT-AG
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGACTAGGGAGA-TAGAATTACTGA-
* ** * *
52618969 CTTCAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTTCTCCACCACT
64 CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATATTCGATCTACTCCACCACT
*
52619034 TCTT
129 GCTT
*
52619038 AGGGAGATAAGTTCTGAAATCTTCAATCTATTCCACTGT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGT
52619077 AATGCCAAAG
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
131 2 0.01
132 149 0.97
133 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGACTAGGGAGATAGAATTACTGACT
TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATATTCGATCTACTCCACCACTGC
TT
Found at i:52619485 original size:132 final size:132
Alignment explanation
Indices: 52619244--52619739 Score: 597
Period size: 132 Copynumber: 3.8 Consensus size: 132
52619234 CTGTCGGTGC
* * * *
52619244 AGGAAGACAGGACCTACTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * *
52619309 TTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCTACTTC-CTACCAA
66 TTCGATCCACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTACCAA
52619373 TAT
130 TAT
* *
52619376 AGGAAGACAAGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * * * *
52619441 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAA
66 TTCGATCCACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTACCAA
52619506 TAT
130 TAT
* * * *
52619509 AGGAAGACATGATCTGCTTTCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGC-ATC
1 AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
* * * *
52619573 TTTGATCCACTTCCTACCAATATAGGAAGACAGGA-CTTGCTATCTTCGATCTACTTCAC-GCCA
66 TTCGATCCACTTCCCACCAATATAGGAAGACAAGATC-TGC-ATCTTCGATCTACTTCACTACCA
*
52619636 ATAA
129 ATAT
* * * * * * ***
52619640 ATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCTACCAATATGGGAAGACAAGATCTG-TAT
1 AGGAAGACAAGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTAT
*
52619704 CTTCGATCCACTTCCTACCAATATAGGAAGACAAGA
65 CTTCGATCCACTTCCCACCAATATAGGAAGACAAGA
52619740 CATGCTATCT
Statistics
Matches: 324, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
130 1 0.00
131 58 0.18
132 199 0.61
133 66 0.20
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
TTCGATCCACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACTACCAAT
AT
Found at i:52619628 original size:220 final size:220
Alignment explanation
Indices: 52619245--52619739 Score: 706
Period size: 220 Copynumber: 2.2 Consensus size: 220
52619235 TGTCGGTGCA
* * * * * * *
52619245 GGAAGACAGGACCTACTATTTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTC
1 GGAAGACAAGATCTAC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTTTC
* * ** * *
52619309 TTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCTACTTCCTACCAAT
64 TTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
* *
52619374 ATAGGAAGACAAGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
129 ATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTT
* *
52619439 TCTTCGATCTACTTCGCCACCAGTATG
194 TCTTCGATCTACTCCGCCACCAATATG
*
52619466 GGAAGACAAGATCTACATCTTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTGCTTTCT
1 GGAAGACAAGATCTACATCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCTTTCT
* * * *
52619531 TCGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAATA
65 TCGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATA
* *
52619595 TAGGAAGACAGGACTTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTT
130 TAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTT
*
52619660 CTTCGATCTACTCCGCTACCAATATG
195 CTTCGATCTACTCCGCCACCAATATG
**
52619686 GGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGA
1 GGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGA
52619740 CATGCTATCT
Statistics
Matches: 244, Mismatches: 29, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
219 21 0.09
220 171 0.70
221 52 0.21
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (220 bp):
GGAAGACAAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGACACCAATACAGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAT
AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
TTCGATCTACTCCGCCACCAATATG
Found at i:52619749 original size:44 final size:45
Alignment explanation
Indices: 52619244--52619751 Score: 520
Period size: 44 Copynumber: 11.5 Consensus size: 45
52619234 CTGTCGGTGC
* * * * * * *
52619244 AGGAAGACAGGACCTACTATTTTCGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * * *
52619288 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* *
52619333 GGGAAGATAAGATCTGC-ATCTTCGATCTACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * * * *
52619376 AGGAAGACAAGACCTGCTATCTTTGATCTACTTCAC-GCCAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * * *
52619420 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * *
52619465 GGGAAGACAAGATCTAC-ATCTTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * * * * *
52619509 AGGAAGACATGATCTGCTTTCTTCGATCTACTTCAC-GCTAATAC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * *
52619553 ATGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* * * *
52619596 AGGAAGACAGGA-CTTGCTATCTTCGATCTACTTCAC-GCCAATAA
1 AGGAAGACAAGATC-TGCTATCTTCGATCTACTTCGCTACCAATAT
* * *
52619640 ATGAAGACAAGATCTGCTTTCTTCGATCTACTCCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
* *
52619685 GGGAAGACAAGATCTG-TATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
52619728 AGGAAGACAAGA-CATGCTATCTTC
1 AGGAAGACAAGATC-TGCTATCTTC
52619752 ACTGATCTGC
Statistics
Matches: 378, Mismatches: 73, Indels: 26
0.79 0.15 0.05
Matches are distributed among these distances:
42 3 0.01
43 76 0.20
44 223 0.59
45 76 0.20
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTACCAATAT
Found at i:52620974 original size:6 final size:6
Alignment explanation
Indices: 52620958--52620989 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
52620948 GGCCTCTCCA
52620958 TTTTC- TTTTCT TTTTC- TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
52620990 ATCACTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:52620974 original size:11 final size:11
Alignment explanation
Indices: 52620958--52620988 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
52620948 GGCCTCTCCA
52620958 TTTTCTTTTCT
1 TTTTCTTTTCT
52620969 TTTTCTTTTCT
1 TTTTCTTTTCT
52620980 TTTTCTTTT
1 TTTTCTTTT
52620989 TATCACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:52626256 original size:22 final size:21
Alignment explanation
Indices: 52626221--52626297 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
52626211 AAAGGGTATC
* *
52626221 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
52626242 TACAGAATCATATCTTCTAAGAT
1 TACA-AATCATATC-TCTAAGAT
*
52626265 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
52626284 TGCATATCATATCT
1 TACAAATCATATCT
52626298 AAGATTGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.38
21 5 0.10
22 13 0.27
23 12 0.25
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:52626260 original size:23 final size:22
Alignment explanation
Indices: 52626221--52626278 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
52626211 AAAGGGTATC
* *
52626221 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
52626242 TACAGAATCATATCTTCTAAGAT
1 TACA-AATCATATCTTCTAAGAT
*
52626265 TACATATCATATCT
1 TACAAATCATATCT
52626279 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.12
22 16 0.50
23 12 0.38
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:52626281 original size:19 final size:19
Alignment explanation
Indices: 52626234--52626310 Score: 91
Period size: 19 Copynumber: 3.8 Consensus size: 19
52626224 AAATTAAATC
*
52626234 TCTAAGATTACAGAATCATA
1 TCTAAGATTACA-TATCATA
52626254 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
52626276 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
52626295 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
52626311 CTCAAAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
22 6 0.12
23 12 0.23
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:52633486 original size:17 final size:16
Alignment explanation
Indices: 52633448--52633500 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
52633438 TATAATAGTA
*
52633448 AAAATTAATTTTAAAT
1 AAAATTAATATTAAAT
**
52633464 TTAATTACATATTAAAT
1 AAAATTA-ATATTAAAT
52633481 AAAATTAATTATATAAAT
1 AAAATTAA-TAT-TAAAT
52633499 AA
1 AA
52633501 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 6 0.21
17 16 0.55
18 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTAATATTAAAT
Found at i:52634621 original size:15 final size:15
Alignment explanation
Indices: 52634601--52634630 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52634591 ATTAATTAGT
52634601 TATTATTTTAAATAA
1 TATTATTTTAAATAA
*
52634616 TATTATTTTATATAA
1 TATTATTTTAAATAA
52634631 AATAAAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATTTTAAATAA
Found at i:52634626 original size:20 final size:20
Alignment explanation
Indices: 52634610--52634647 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52634600 TTATTATTTT
* *
52634610 AAATAATATTATTTTATATA
1 AAATAAAATTATATTATATA
52634630 AAATAAAATTATATTATA
1 AAATAAAATTATATTATA
52634648 CTGTTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAAAATTATATTATATA
Found at i:52636318 original size:63 final size:64
Alignment explanation
Indices: 52636185--52636320 Score: 168
Period size: 63 Copynumber: 2.1 Consensus size: 64
52636175 TCAATTTCTT
* * ** * * *
52636185 CCCCTTTCCTGTCAGTTTCCCCATCCCTGAACCCCCCTTCCTCATCGATTATCCCATCCTCGAA
1 CCCCTTCCCTGTCAGTTTCCCCATCCCTCAAAACCCCATCCCCATCGATTATCCCATCCTCAAA
* *
52636249 CCCCTTCCCTGTCGGTTTCCCCATCCC-CAAAACCCCATCCCCAT-GAATTATCCCATCCTTAAA
1 CCCCTTCCCTGTCAGTTTCCCCATCCCTCAAAACCCCATCCCCATCG-ATTATCCCATCCTCAAA
52636312 CCCCTTCCC
1 CCCCTTCCC
52636321 CCGCTAGTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
62 1 0.02
63 36 0.58
64 25 0.40
ACGTcount: A:0.18, C:0.49, G:0.07, T:0.27
Consensus pattern (64 bp):
CCCCTTCCCTGTCAGTTTCCCCATCCCTCAAAACCCCATCCCCATCGATTATCCCATCCTCAAA
Found at i:52637789 original size:25 final size:27
Alignment explanation
Indices: 52637728--52637791 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
52637718 AGAATCTATT
**
52637728 AGAATACGCCACAAAGACTTTCCATTA
1 AGAATACGCCACAAAGACGATCCATTA
52637755 AGAATACGCCACAAA-ACGATCC-TTA
1 AGAATACGCCACAAAGACGATCCATTA
* *
52637780 AGAGTGCGCCAC
1 AGAATACGCCAC
52637792 GAAGGCGTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.39
26 5 0.15
27 15 0.45
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.17
Consensus pattern (27 bp):
AGAATACGCCACAAAGACGATCCATTA
Found at i:52646715 original size:22 final size:22
Alignment explanation
Indices: 52646684--52646748 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
52646674 GTGTTCTCAA
52646684 TGGCAATTTATCTGCAAATCAG
1 TGGCAATTTATCTGCAAATCAG
* * *
52646706 TGGCAGTTTATCTACTAATCAG
1 TGGCAATTTATCTGCAAATCAG
* *
52646728 TGACAATTTATTTGCAAATCA
1 TGGCAATTTATCTGCAAATCA
52646749 ATGGTGGCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (22 bp):
TGGCAATTTATCTGCAAATCAG
Found at i:52657121 original size:21 final size:20
Alignment explanation
Indices: 52657082--52657122 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
52657072 ATCTAGGTTG
* *
52657082 CATTTTGTATTTAGTATATT
1 CATTTTGTATATAGGATATT
52657102 CATTTTGGTATATAGGATATT
1 CATTTT-GTATATAGGATATT
52657123 TTATCATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
CATTTTGTATATAGGATATT
Found at i:52672043 original size:13 final size:14
Alignment explanation
Indices: 52672025--52672053 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
52672015 GGATTTTAAC
52672025 TTTTATTTTG-GGA
1 TTTTATTTTGTGGA
52672038 TTTTATTTTGTGGA
1 TTTTATTTTGTGGA
52672052 TT
1 TT
52672054 ACTATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.00, G:0.21, T:0.66
Consensus pattern (14 bp):
TTTTATTTTGTGGA
Found at i:52674814 original size:21 final size:22
Alignment explanation
Indices: 52674790--52674834 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
52674780 AGAAAAAGAG
52674790 AAATACAAAAAAG-AATAG-ATC
1 AAAT-CAAAAAAGAAATAGAATC
*
52674811 AAATCAAGAAAGAAATAGAATC
1 AAATCAAAAAAGAAATAGAATC
52674833 AA
1 AA
52674835 CGACTTGCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 9 0.43
22 5 0.24
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (22 bp):
AAATCAAAAAAGAAATAGAATC
Found at i:52679912 original size:32 final size:32
Alignment explanation
Indices: 52679838--52680030 Score: 251
Period size: 32 Copynumber: 5.8 Consensus size: 32
52679828 AAATAATACA
* * * *
52679838 TGAACAGGAAAGATTCCTTGCAACAAAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--CG
*
52679873 TGAACAGGTGAGATTCCCTGCAAGAAATGACG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
52679905 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
*
52679937 TGAACAGGAGAGATTCCCTGCAAGAAATGATG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
* *
52679969 TGAACAGGAAAGATTCCCTGCAAGAAATGATG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
*
52680001 TGAACAGGAGGAAATATTCCCTGCAAGAAA
1 TGAACAGGA-G--AGATTCCCTGCAAGAAA
52680031 AGACAAGTGA
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
32 104 0.72
34 5 0.03
35 36 0.25
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.18
Consensus pattern (32 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATGACG
Found at i:52685059 original size:32 final size:32
Alignment explanation
Indices: 52684985--52685177 Score: 251
Period size: 32 Copynumber: 5.8 Consensus size: 32
52684975 AAATAATACA
* * * *
52684985 TGAACAGGAAAGATTCCTTGCAACAAAATAATGCG
1 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--CG
*
52685020 TGAACAGGTGAGATTCCCTGCAAGAAATGACG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
52685052 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
*
52685084 TGAACAGGAGAGATTCCCTGCAAGAAATGATG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
* *
52685116 TGAACAGGAAAGATTCCCTGCAAGAAATGATG
1 TGAACAGGAGAGATTCCCTGCAAGAAATGACG
*
52685148 TGAACAGGAGGAAATATTCCCTGCAAGAAA
1 TGAACAGGA-G--AGATTCCCTGCAAGAAA
52685178 AGACAAGTGA
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
32 104 0.72
34 5 0.03
35 36 0.25
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.18
Consensus pattern (32 bp):
TGAACAGGAGAGATTCCCTGCAAGAAATGACG
Found at i:52691019 original size:32 final size:32
Alignment explanation
Indices: 52690924--52691020 Score: 131
Period size: 32 Copynumber: 2.9 Consensus size: 32
52690914 TCACTTGTCT
* *
52690924 TTTCTTGCAGGGAATATTTCCTCCTGTTCACATCA
1 TTTCTTGCAGGG-A-ATCT-CTCCTGTTCACGTCA
*
52690959 TTTCTTGCAGGGAATCTTTCCTGTTCACGTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGTCA
*
52690991 TTTCTTGCAGGGAATCTCTCATGTTCACGT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGT
52691021 GAAATTAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
32 41 0.72
33 3 0.05
34 1 0.02
35 12 0.21
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.40
Consensus pattern (32 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGTCA
Found at i:52691702 original size:21 final size:21
Alignment explanation
Indices: 52691678--52691733 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
52691668 CTGAACAATT
*
52691678 AAGAAAAAGA-GAAATACAAAA
1 AAGAAAAAGATCAAAT-CAAAA
*
52691699 AAG-AATAGATCAAATCAAAA
1 AAGAAAAAGATCAAATCAAAA
*
52691719 AAGAAATAGAATCAA
1 AAGAAAAAG-ATCAA
52691734 CGATTTGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.11
Consensus pattern (21 bp):
AAGAAAAAGATCAAATCAAAA
Done.