Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 24 of 145
Found at i:9138967 original size:88 final size:85
Alignment explanation
Indices: 9138825--9139135 Score: 266
Period size: 88 Copynumber: 3.4 Consensus size: 85
9138815 CATCGCGGCG
* * * *
9138825 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAA-GCCACAAGTCTCATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATG-C-GAA-TCTTATTTCCCTGAAGTT
*
9138889 ACAGTGAAGCATATTGAAGTTAC
63 GCAGTGAAGCATATTGAAGTTAC
9138912 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAATATGCGAATCTTATTTCCCTGAAGTT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-ATGCGAATCTTATTTCCCTGAAGTT
* *
9138977 GTAGTGGAA-CAGATTAAAGCTGCAAGTTAC
63 GCAGT-GAAGC--A-T--A-TTG-AAGTTAC
* * * * *
9139007 AAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCTTGAAAT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AT-GCGAATCTTATTTCCCTGAAGT
* * *
9139072 TGCAGTGAAGCAAATTAAAGATAAC
62 TGCAGTGAAGCATATTGAAG-TTAC
* * *
9139097 GAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
9139136 GCTACAAGTT
Statistics
Matches: 183, Mismatches: 25, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
87 2 0.01
88 53 0.29
89 12 0.07
90 37 0.20
91 3 0.02
93 1 0.01
94 3 0.02
95 45 0.25
96 27 0.15
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATGCGAATCTTATTTCCCTGAAGTTGCA
GTGAAGCATATTGAAGTTAC
Found at i:9139033 original size:51 final size:49
Alignment explanation
Indices: 9138825--9139695 Score: 458
Period size: 51 Copynumber: 18.6 Consensus size: 49
9138815 CATCGCGGCG
* **
9138825 AATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGC--C---ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * * *
9138869 AGTCTCATTTCCCTGAAGTTACAGT-GAAGCATATTGAAG-T----TACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAGTACA
* * * * *
9138913 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAA--T--A-TGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * *
9138957 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTGCAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
* * * * *
9139008 AATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAG--ATAG--CG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * * * *
9139053 AATCTTATTTTCTTGAAATTGCAGT-GAAGCAAATTAAAG--ATA--ACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATTAAAGCTACAGTACA
* *
9139098 AATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
* ** * * *
9139149 AATCTTATCTCCCTG-AGCTTGTAGTGGAGTAGATTGAA--TATAG--CG
1 AATCTTATCTCCCTGAAG-TTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * *
9139194 AATCTTATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-A-GTACA
* * * * *
9139245 AATCTTATCTCCCTGAAGTTGAAGTGGAGCAAATTGAAG--ATAG--CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * *
9139290 AATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
*
9139341 AATCTTATCTCCCTGAACG-TGCAGTGGAGCAGATTAAAG---C-G----
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * *
9139382 AACCTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAG---C--TACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGA-TTAAAGCTACAGTACA
* * * *
9139426 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAG--ATAG--CA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* *
9139471 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
* * *
9139522 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG---C-G-ACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
* * * * * * *
9139566 AGTCCTATAC-CTCTGAGGTTGCAGTGGATCGGATTAAATCTACCA-TAACA
1 AATCTTAT-CTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA-CAGT-ACA
* * * * *
9139616 AATCTTATTTCCCTGAAGTTGTAGTGGAATAGACTAAAGTTACAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC-AG-TACA
*
9139667 AATCTTATCTCCTTGAAGTTGCAGTGGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAA
9139696 TAGGTTGAAT
Statistics
Matches: 639, Mismatches: 124, Indels: 121
0.72 0.14 0.14
Matches are distributed among these distances:
40 3 0.00
41 33 0.05
43 3 0.00
44 161 0.25
45 168 0.26
46 8 0.01
47 6 0.01
48 14 0.02
49 6 0.01
50 35 0.05
51 200 0.31
52 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (49 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAGTACA
Found at i:9139120 original size:45 final size:45
Alignment explanation
Indices: 9138823--9139556 Score: 432
Period size: 45 Copynumber: 15.8 Consensus size: 45
9138813 GTCATCGCGG
* * **
9138823 CGAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAG-CCA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * * * * * *
9138867 C-AAGTCTCATTTCCCTGAAGTTACAGTGAAGCATATTGAAG-TTA
1 CGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * *
9138911 C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAATAT-G
1 CGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * * *
9138955 CGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTGCAAGTTA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA---G--A-TAA
* * * *
9139006 CAAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGATAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * * * * *
9139051 CGAATCTTATTTTCTTGAAATTGCAGTGAAGCAAATTAAAGATAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * * *
9139096 CGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A-TAA
* * * * * *
9139147 CAAATCTTATCTCCCTG-AGCTTGTAGTGGAGTAGATTGAATATAG
1 CGAATCTTATCTCCCTGAAG-TTGCAGTGGAGCAGATTAAAGATAA
* * * * * *
9139192 CGAATCTTATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG--ATAA
* * * * *
9139239 GGTATAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAAATTGAAGATAG
1 CG----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * * * * *
9139288 CAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A-TAA
*
9139339 CAAATCTTATCTCCCTGAACG-TGCAGTGGAGCAGATTAAAG----
1 CGAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAGATAA
* * *
9139380 CGAACCTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAGCT-A
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGATAA
* * * *
9139424 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
* * * * *
9139469 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-----A-TAA
* *
9139520 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
9139557 GAAGCGACAA
Statistics
Matches: 533, Mismatches: 113, Indels: 81
0.73 0.16 0.11
Matches are distributed among these distances:
40 3 0.01
41 33 0.06
43 2 0.00
44 134 0.25
45 174 0.33
46 4 0.01
47 3 0.01
48 1 0.00
49 3 0.01
50 6 0.01
51 169 0.32
52 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (45 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAA
Found at i:9139153 original size:96 final size:96
Alignment explanation
Indices: 9138822--9139643 Score: 635
Period size: 96 Copynumber: 8.9 Consensus size: 96
9138812 AGTCATCGCG
* * ** * *
9138822 GCGAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGCCACAAG-T-C---TC--ATTTC
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
* * * *
9138880 CCTGAAGTTACAGTGAAGCATATTGAAGTTA
66 CCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * *
9138911 -C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAA--T---A--TGCGAATCTTATTT
1 GCGAA-TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCT
* * * *
9138967 CCCTGAAGTTGTAGTGGAACAGATTAAAGCTGCAA
65 CCCTGAAGTTGCAGTGGAGCAGATTGAAGAT---A
* * * * * * *
9139002 GTTACAAATCTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAG--A-TAG---CGAATCTTAT
1 G---CGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTAT
* * * * * * *
9139061 TTTCTTGAAATTGCAGTGAAGCAAATTAAAGATA
63 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* *
9139095 ACGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
* * *
9139160 CCTG-AGCTTGTAGTGGAGTAGATTGAATATA
66 CCTGAAG-TTGCAGTGGAGCAGATTGAAGATA
* * * * *
9139191 GCGAATCTTATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATAAATCTTATCTC
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
* *
9139256 CCTGAAGTTGAAGTGGAGCAAATTGAAGATA
66 CCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * *
9139287 GCAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
9139352 CCTGAACG-TGCAGTGGAGCAGATT--A-A-A
66 CCTGAA-GTTGCAGTGGAGCAGATTGAAGATA
* * * *
9139379 GCGAACCTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAG---C----TACAAATCTTATCT
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGA-TTAAAGCTACAAGTTACAAATCTTATCT
*
9139436 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATA
65 CCCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* *
9139468 GCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
1 GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
* **
9139533 CTTGAAGTTGCAGTGGAGCAGATTGAAGCGA
66 CCTGAAGTTGCAGTGGAGCAGATTGAAGATA
* * * * * * * * *
9139564 -C-AAGTCCTA-TACCTCTGAGGTTGCAGTGGATCGGATTAAATCTACCA-TAACAAATCTTATT
1 GCGAA-TCTTATTTCC-CTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATC
*
9139625 TCCCTGAAGTTGTAGTGGA
64 TCCCTGAAGTTGCAGTGGA
9139644 ATAGACTAAA
Statistics
Matches: 601, Mismatches: 88, Indels: 83
0.78 0.11 0.11
Matches are distributed among these distances:
82 1 0.00
83 2 0.00
84 1 0.00
85 36 0.06
86 2 0.00
87 3 0.00
88 63 0.10
89 35 0.06
90 37 0.06
91 3 0.00
92 35 0.06
93 4 0.01
94 35 0.06
95 67 0.11
96 273 0.45
97 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (96 bp):
GCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTC
CCTGAAGTTGCAGTGGAGCAGATTGAAGATA
Found at i:9139219 original size:141 final size:141
Alignment explanation
Indices: 9138955--9139232 Score: 434
Period size: 141 Copynumber: 2.0 Consensus size: 141
9138945 ATTCAATATG
* * *
9138955 CGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTGCAAGTTACAAATCTTATCTCC
1 CGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
* * *
9139020 CTGAGGTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCTTGAAATTGCAGT-GAAGCA
66 CTGAGCTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCCTGAAATTACAGTGGAA-CA
9139084 AATTAAAGATAA
130 AATTAAAGATAA
9139096 CGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
1 CGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
* * *
9139161 CTGAGCTTGTAGTGGAGTAGATTGAATATAGCGAATCTTATTTTCCT-AAAGTTACAGTGGAACA
66 CTGAGCTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCCTGAAA-TTACAGTGGAACA
*
9139225 GATTAAAG
130 AATTAAAG
9139233 CTACAAGGTA
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
140 3 0.02
141 119 0.95
142 3 0.02
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (141 bp):
CGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCC
CTGAGCTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCCTGAAATTACAGTGGAACAA
ATTAAAGATAA
Found at i:9139526 original size:181 final size:180
Alignment explanation
Indices: 9139011--9139563 Score: 669
Period size: 181 Copynumber: 3.0 Consensus size: 180
9139001 AGTTACAAAT
* * * * * * * * *
9139011 CTTATCTCCCTGAGGTTGTAGTGGAGCAGATTAAAGATAGCGAATCTTATTTTCTTGAAATTGCA
1 CTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCTTATCTCCCTGAAGTTGAA
* * * * *
9139076 GTGAAGCAAATTAAAGATAACGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTAC
64 GTGGAGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* * * * *
9139141 AAGTTACAAATCTTATCTCCCTGAGCTTGTAGTGGAGTAGATTGAATATAGCGAAT
129 AAGTTACAAATCTTATCTCCCTGAACGTGCAGTGGAGCAGATT--A-A-AGCGAAC
* * * *
9139197 CTTATTTTCCTAAAGTTACAGTGGAACAGATTAAAGCTACAAGGTATAAATCTTATCTCCCTGAA
1 CTTA-TCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-------AAATCTTATCTCCCTGAA
* *
9139262 GTTGAAGTGGAGCAAATTGAAGATAGCAAATCTTATTTTCCTAAAGTTGCAGTGGAACAGATTAA
58 GTTGAAGTGGAGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA
9139327 AGCTACAAGTTACAAATCTTATCTCCCTGAACGTGCAGTGGAGCAGATTAAAGCGAAC
123 AGCTACAAGTTACAAATCTTATCTCCCTGAACGTGCAGTGGAGCAGATTAAAGCGAAC
*
9139385 CTTATCTCCTTGAAGTTGCAGTGGAGC-GAGTTAAAGCTACAAATCTTATCTCCCTGAAGTTGTA
1 CTTATCTCC-TGAAGTTGCAGTGGAGCAGA-TTAAAGCTACAAATCTTATCTCCCTGAAGTTGAA
* *
9139449 GTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTAC
64 GTGGAGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
* *
9139514 AAGTTACAAATCTTATCTCCTTGAA-GTTGCAGTGGAGCAGATTGAAGCGA
129 AAGTTACAAATCTTATCTCCCTGAACG-TGCAGTGGAGCAGATTAAAGCGA
9139564 CAAGTCCTAT
Statistics
Matches: 320, Mismatches: 36, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
180 1 0.00
181 130 0.41
185 1 0.00
186 29 0.09
187 8 0.03
188 34 0.11
189 1 0.00
190 1 0.00
192 115 0.36
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (180 bp):
CTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGAAGT
GGAGCAAATTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA
GTTACAAATCTTATCTCCCTGAACGTGCAGTGGAGCAGATTAAAGCGAAC
Found at i:9141404 original size:3 final size:3
Alignment explanation
Indices: 9141319--9141387 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
9141309 TTATTTGTGC
* *
9141319 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATC ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
9141366 ATT TTT AATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT
9141388 CTCGTTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9142251 original size:3 final size:3
Alignment explanation
Indices: 9142166--9142234 Score: 95
Period size: 3 Copynumber: 23.0 Consensus size: 3
9142156 TTATTTGTGC
* *
9142166 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT ATC ATT ATT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
9142213 ATT TTT AATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT
9142235 CTCGTTATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9142826 original size:847 final size:847
Alignment explanation
Indices: 9141193--9142886 Score: 3345
Period size: 847 Copynumber: 2.0 Consensus size: 847
9141183 TTCATTCTGA
9141193 TTTCGATTTAATCCTTGGTCTATTTAATTTCAACCTTTCCACAAACTGTTTTTATTTTATCTATT
1 TTTCGATTTAATCCTTGGTCTATTTAATTTCAACCTTTCCACAAACTGTTTTTATTTTATCTATT
9141258 ATTATTTCTTTATCCTTTTACACTTAAAAGAAATAGATTATTCATACTATTTTATTTGTGCATTA
66 ATTATTTCTTTATCCTTTTACACTTAAAAGAAATAGATTATTCATACTATTTTATTTGTGCATTA
9141323 TTATTATTATTATTATTATTATTGTTATTATCATTATTATTTTATTTTTAATTATTATTATTATT
131 TTATTATTATTATTATTATTATTGTTATTATCATTATTATTTTATTTTTAATTATTATTATTATT
9141388 CTCGTTATTTTATTATTTTTAATATCTTCATTTTATGTTTATTTATCCTTTTTTAAGTTATGCAT
196 CTCGTTATTTTATTATTTTTAATATCTTCATTTTATGTTTATTTATCCTTTTTTAAGTTATGCAT
9141453 TTTCCATTTTCATTTTTATTTTAAGTTATCTTATTTATTTTATTATTGCGATATGATTATTAATA
261 TTTCCATTTTCATTTTTATTTTAAGTTATCTTATTTATTTTATTATTGCGATATGATTATTAATA
9141518 TTGTTTTCATTATTATAATTACATCATTATTATTATAATATTCTATTATTTATAATTTATCATTT
326 TTGTTTTCATTATTATAATTACATCATTATTATTATAATATTCTATTATTTATAATTTATCATTT
* *
9141583 TAATATTCTACCCGTATAGCTATTTTACATTATTTCATTATCATTGTACTATACATTACGGTTAA
391 TAATAATATACCCGTATAGCTATTTTACATTATTTCATTATCATTGTACTATACATTACGGTTAA
9141648 AAATATTTGTTCATTTTTCATACGATGCCCGAATAAATTAAATATATACCATTTTAAGTGTTACA
456 AAATATTTGTTCATTTTTCATACGATGCCCGAATAAATTAAATATATACCATTTTAAGTGTTACA
9141713 TTAATTTTTAATCGATGCATAAAAAGGAAAATTTTAAAATCAAGGCAATGTTCCGCATTTGGAGA
521 TTAATTTTTAATCGATGCATAAAAAGGAAAATTTTAAAATCAAGGCAATGTTCCGCATTTGGAGA
9141778 TTCGAGAAGTCGTGCCCTAAGTTACGGGGTTCGACTTTCTCTTTGAACCTAGATAGCTGAGCATC
586 TTCGAGAAGTCGTGCCCTAAGTTACGGGGTTCGACTTTCTCTTTGAACCTAGATAGCTGAGCATC
9141843 CCTTTCAAAATTAAATCACATGAGATTTAAACAATAATTAAATAAAGAGTAAGCTTATTTTTGAG
651 CCTTTCAAAATTAAATCACATGAGATTTAAACAATAATTAAATAAAGAGTAAGCTTATTTTTGAG
9141908 GATTGTCCTAACTTACAGGATGTGACCTTTTGTTACCTTGAGATAAGAGAGCCTTTTACATACGT
716 GATTGTCCTAACTTACAGGATGTGACCTTTTGTTACCTTGAGATAAGAGAGCCTTTTACATACGT
9141973 TTTGATTTATTCAAGCGGTTTAAATAATAACATTATGCAAAGTGGGGTCGCGTTCTAAAATCTCT
781 TTTGATTTATTCAAGCGGTTTAAATAATAACATTATGCAAAGTGGGGTCGCGTTCTAAAATCTCT
9142038 TC
846 TC
9142040 TTTCGATTTAATCCTTGGTCTATTTAATTTCAACCTTTCCACAAACTGTTTTTATTTTATCTATT
1 TTTCGATTTAATCCTTGGTCTATTTAATTTCAACCTTTCCACAAACTGTTTTTATTTTATCTATT
9142105 ATTATTTCTTTATCCTTTTACACTTAAAAGAAATAGATTATTCATACTATTTTATTTGTGCATTA
66 ATTATTTCTTTATCCTTTTACACTTAAAAGAAATAGATTATTCATACTATTTTATTTGTGCATTA
9142170 TTATTATTATTATTATTATTATTGTTATTATCATTATTATTTTATTTTTAATTATTATTATTATT
131 TTATTATTATTATTATTATTATTGTTATTATCATTATTATTTTATTTTTAATTATTATTATTATT
9142235 CTCGTTATTTTATTATTTTTAATATCTTCATTTTATGTTTATTTATCCTTTTTTAAGTTATGCAT
196 CTCGTTATTTTATTATTTTTAATATCTTCATTTTATGTTTATTTATCCTTTTTTAAGTTATGCAT
9142300 TTTCCATTTTCATTTTTATTTTAAGTTATCTTATTTATTTTATTATTGCGATATGATTATTAATA
261 TTTCCATTTTCATTTTTATTTTAAGTTATCTTATTTATTTTATTATTGCGATATGATTATTAATA
9142365 TTGTTTTCATTATTATAATTACATCATTATTATTATAATATTCTATTATTTATAATTTATCATTT
326 TTGTTTTCATTATTATAATTACATCATTATTATTATAATATTCTATTATTTATAATTTATCATTT
*
9142430 TAATAA-ATATTCCGTATAGCTATTTTACATTATTTCATTATCATTGTACTATACATTACGGTTA
391 TAATAATATA-CCCGTATAGCTATTTTACATTATTTCATTATCATTGTACTATACATTACGGTTA
9142494 AAAATATTTGTTCATTTTTCATACGATGCCCGAATAAATTAAATATATACCATTTTAAGTGTTAC
455 AAAATATTTGTTCATTTTTCATACGATGCCCGAATAAATTAAATATATACCATTTTAAGTGTTAC
9142559 ATTAATTTTTAATCGATGCATAAAAAGGAAAATTTTAAAATCAAGGCAATGTTCCGCATTTGGAG
520 ATTAATTTTTAATCGATGCATAAAAAGGAAAATTTTAAAATCAAGGCAATGTTCCGCATTTGGAG
9142624 ATTCGAGAAGTCGTGCCCTAAGTTACGGGGTTCGACTTTCTCTTTGAACCTAGATAGCTGAGCAT
585 ATTCGAGAAGTCGTGCCCTAAGTTACGGGGTTCGACTTTCTCTTTGAACCTAGATAGCTGAGCAT
9142689 CCCTTTCAAAATTAAATCACATGAGATTTAAACAATAATTAAATAAAGAGTAAGCTTATTTTTGA
650 CCCTTTCAAAATTAAATCACATGAGATTTAAACAATAATTAAATAAAGAGTAAGCTTATTTTTGA
9142754 GGATTGTCCTAACTTACAGGATGTGACCTTTTGTTACCTTGAGATAAGAGAGCCTTTTACATACG
715 GGATTGTCCTAACTTACAGGATGTGACCTTTTGTTACCTTGAGATAAGAGAGCCTTTTACATACG
9142819 TTTTGATTTATTCAAGCGGTTTAAATAATAACATTATGCAAAGTGGGGTCGCGTTCTAAAATCTC
780 TTTTGATTTATTCAAGCGGTTTAAATAATAACATTATGCAAAGTGGGGTCGCGTTCTAAAATCTC
9142884 TTC
845 TTC
9142887 AAATTTTCAA
Statistics
Matches: 843, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
846 2 0.00
847 841 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (847 bp):
TTTCGATTTAATCCTTGGTCTATTTAATTTCAACCTTTCCACAAACTGTTTTTATTTTATCTATT
ATTATTTCTTTATCCTTTTACACTTAAAAGAAATAGATTATTCATACTATTTTATTTGTGCATTA
TTATTATTATTATTATTATTATTGTTATTATCATTATTATTTTATTTTTAATTATTATTATTATT
CTCGTTATTTTATTATTTTTAATATCTTCATTTTATGTTTATTTATCCTTTTTTAAGTTATGCAT
TTTCCATTTTCATTTTTATTTTAAGTTATCTTATTTATTTTATTATTGCGATATGATTATTAATA
TTGTTTTCATTATTATAATTACATCATTATTATTATAATATTCTATTATTTATAATTTATCATTT
TAATAATATACCCGTATAGCTATTTTACATTATTTCATTATCATTGTACTATACATTACGGTTAA
AAATATTTGTTCATTTTTCATACGATGCCCGAATAAATTAAATATATACCATTTTAAGTGTTACA
TTAATTTTTAATCGATGCATAAAAAGGAAAATTTTAAAATCAAGGCAATGTTCCGCATTTGGAGA
TTCGAGAAGTCGTGCCCTAAGTTACGGGGTTCGACTTTCTCTTTGAACCTAGATAGCTGAGCATC
CCTTTCAAAATTAAATCACATGAGATTTAAACAATAATTAAATAAAGAGTAAGCTTATTTTTGAG
GATTGTCCTAACTTACAGGATGTGACCTTTTGTTACCTTGAGATAAGAGAGCCTTTTACATACGT
TTTGATTTATTCAAGCGGTTTAAATAATAACATTATGCAAAGTGGGGTCGCGTTCTAAAATCTCT
TC
Found at i:9145919 original size:3 final size:3
Alignment explanation
Indices: 9145911--9145938 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
9145901 CTAAAATTGG
9145911 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9145939 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9145945 original size:3 final size:3
Alignment explanation
Indices: 9145939--9145972 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
9145929 AATAATAATA
9145939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9145973 GTCGCCTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9154049 original size:49 final size:49
Alignment explanation
Indices: 9153974--9154079 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 49
9153964 CCAGTTCATG
*
9153974 GTGGTTATACGATCACATGTTCAAGTATAACT-AGGGTTTCTAGTTGACA
1 GTGGTTATACGATCACATGTTCAAGTATAACTCA-GGCTTCTAGTTGACA
* * *
9154023 GTGGTTATACGATCACGA-GTTTAAGTATAATTCAGGCTTCTAGTTGATA
1 GTGGTTATACGATCAC-ATGTTCAAGTATAACTCAGGCTTCTAGTTGACA
*
9154072 GTGATTAT
1 GTGGTTAT
9154080 GCGGTTACGG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
49 48 0.96
50 2 0.04
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (49 bp):
GTGGTTATACGATCACATGTTCAAGTATAACTCAGGCTTCTAGTTGACA
Found at i:9157280 original size:4 final size:4
Alignment explanation
Indices: 9157271--9157319 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
9157261 AACAAAATTT
* * * * *
9157271 TAAA TAAA TATA TAAA TAAA CAAA CAAA TAAC TAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
9157319 T
1 T
9157320 GATTAAGAGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:9162200 original size:18 final size:19
Alignment explanation
Indices: 9162177--9162213 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9162167 CTTTTTAAAA
9162177 TATAAAT-TTTAAAATTTT
1 TATAAATATTTAAAATTTT
*
9162195 TATAAATATTTTAAATTTT
1 TATAAATATTTAAAATTTT
9162214 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAAAATTTT
Found at i:9162212 original size:19 final size:19
Alignment explanation
Indices: 9162177--9162242 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 19
9162167 CTTTTTAAAA
*
9162177 TATAAAT-TTTAAAATTTT
1 TATAAATATTTTAAATTTT
9162195 TATAAATATTTTAAA-TTT
1 TATAAATATTTTAAATTTT
*
9162213 TAAAAATTATTTT-AATTTT
1 TATAAA-TATTTTAAATTTT
*
9162232 T-TAAAAATTTT
1 TATAAATATTTT
9162243 GGTTAGGTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
17 5 0.12
18 20 0.49
19 16 0.39
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTAAATTTT
Found at i:9162235 original size:20 final size:20
Alignment explanation
Indices: 9162123--9162240 Score: 80
Period size: 20 Copynumber: 5.7 Consensus size: 20
9162113 TATGATAAAC
*
9162123 TTTTTTAAAATATTCTTTTGAA
1 TTTTTTAAAA-ATTATTTT-AA
**
9162145 TTTTTTTTAAAAATT-TCATAA
1 --TTTTTTAAAAATTATTTTAA
*
9162166 TCTTTTTAAAATATAAATTTTAAA
1 T-TTTTTAAAA-AT-TATTTT-AA
* *
9162190 ATTTTTATAAA-TATTTTAA
1 TTTTTTAAAAATTATTTTAA
*
9162209 -ATTTTAAAAATTATTTTAA
1 TTTTTTAAAAATTATTTTAA
9162228 TTTTTTAAAAATT
1 TTTTTTAAAAATT
9162241 TTGGTTAGGT
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
18 8 0.11
19 11 0.14
20 25 0.33
21 4 0.05
22 3 0.04
23 13 0.17
24 12 0.16
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (20 bp):
TTTTTTAAAAATTATTTTAA
Found at i:9168727 original size:23 final size:23
Alignment explanation
Indices: 9168701--9168792 Score: 93
Period size: 23 Copynumber: 4.1 Consensus size: 23
9168691 TGAAAAGTTA
9168701 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
9168724 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * * * *
9168747 GAAAAGT-TACACAC---ATTAT
1 GAAGAGTGAAGAGACTTGAATAT
9168766 GAAGAGTGAAGAGACTTGAATTAT
1 GAAGAGTGAAGAGACTTGAA-TAT
9168790 GAA
1 GAA
9168793 AGGTACACAC
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
19 9 0.17
20 4 0.08
22 4 0.08
23 29 0.56
24 6 0.12
ACGTcount: A:0.45, C:0.07, G:0.27, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:9168768 original size:42 final size:42
Alignment explanation
Indices: 9168721--9168804 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
9168711 GAGACTTGAA
*
9168721 TATGAAGAGTGAAGAGACTTGAA-GATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAATGATG-AAAGGTACACACAT
*
9168763 TATGAAGAGTGAAGAGACTTGAATTATGAAAGGTACACACAT
1 TATGAAGAGTGAAGAGACTTGAATGATGAAAGGTACACACAT
9168805 GCATGAATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAATGATGAAAGGTACACACAT
Found at i:9173014 original size:23 final size:23
Alignment explanation
Indices: 9172980--9173070 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
9172970 AAAAAAGTTA
*
9172980 GAAGAGTAAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
*
9173003 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * * * *
9173026 GAAAAGT-TACACAC---ATTAT
1 GAAGAGTGAAGAGACTTGAATAT
9173045 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
9173068 GAA
1 GAA
9173071 AGGTTACACA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.46, C:0.07, G:0.26, T:0.21
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:9173047 original size:42 final size:42
Alignment explanation
Indices: 9173000--9173083 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
9172990 GAGACTTGAA
9173000 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
9173042 TATGAAGAGTGAAGAGACTTGAATATGAAAGGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
9173084 GCATGAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.23
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:9184833 original size:9 final size:9
Alignment explanation
Indices: 9184819--9184851 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9184809 GTTAAAAGAA
9184819 TCGAGTTAT
1 TCGAGTTAT
*
9184828 TCGAGTTAA
1 TCGAGTTAT
9184837 TCGAGTTAT
1 TCGAGTTAT
9184846 TCGAGT
1 TCGAGT
9184852 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9184840 original size:18 final size:18
Alignment explanation
Indices: 9184817--9184851 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9184807 GAGTTAAAAG
9184817 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
9184835 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
9184852 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:9184998 original size:21 final size:21
Alignment explanation
Indices: 9184957--9184999 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9184947 ACCCCAAACT
* *
9184957 CTCAAACCTTTTTACTTTTCC
1 CTCAAAACTTTTTACTCTTCC
9184978 CTCAAAAC-TTTTACTCCTTCC
1 CTCAAAACTTTTTACT-CTTCC
9184999 C
1 C
9185000 ACTTTCCCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTCTTCC
Found at i:9189645 original size:21 final size:21
Alignment explanation
Indices: 9189619--9189681 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
9189609 TTAGCTCAGA
9189619 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
9189640 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
9189661 CGGGTAACCTGATATATTTAT
1 CGGGTAACCTGATATATTTAT
9189682 ACTCTTCTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (21 bp):
CGGGTAACCTGATATATTTAT
Found at i:9191158 original size:160 final size:160
Alignment explanation
Indices: 9190894--9191373 Score: 915
Period size: 160 Copynumber: 3.0 Consensus size: 160
9190884 ATGGACACCA
*
9190894 TAGAAGGATTTATCAAAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
* *
9190959 TATCAAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAAAGAGTAATTGAAGGGAACTAT
66 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
9191024 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
9191054 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
*
9191119 TATTGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
66 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
9191184 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
9191214 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
1 TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
9191279 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
66 TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
*
9191344 TTATGATAGCAAGTGCTAAAAAAGAGTGGG
131 TTATGATAGTAAGTGCTAAAAAAGAGTGGG
9191374 ATACCTTGAA
Statistics
Matches: 314, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 314 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.22
Consensus pattern (160 bp):
TAGAAGGATTTATCAGAAAAGGCTTACTAGGATAACTTGTAAAGAGGAAACCTAGATAGTAAGAA
TATCGAGAAGAAAAGATATCCAAGAGAAGAGAGACAAGTTATAGAGAGTAATTGAAGGGAACTAT
TTATGATAGTAAGTGCTAAAAAAGAGTGGG
Found at i:9192340 original size:29 final size:29
Alignment explanation
Indices: 9192298--9192356 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
9192288 TGTCCTAGAG
*
9192298 ATTGGTTTGGATTTGGATCAAAGGCATCA
1 ATTGGTTTGGATTTGGATCAAAGACATCA
*
9192327 ATTGGTTTGGATTTGGTTCAAAGACATCA
1 ATTGGTTTGGATTTGGATCAAAGACATCA
9192356 A
1 A
9192357 CTGCTCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (29 bp):
ATTGGTTTGGATTTGGATCAAAGACATCA
Found at i:9199380 original size:18 final size:18
Alignment explanation
Indices: 9199353--9199393 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9199343 TTAAATAATT
* *
9199353 TTTTATTAAGTAAAAATA
1 TTTTAATAAGCAAAAATA
9199371 TTTTAATAAGCAAAAATA
1 TTTTAATAAGCAAAAATA
9199389 TTTTA
1 TTTTA
9199394 TTAATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TTTTAATAAGCAAAAATA
Found at i:9203690 original size:23 final size:23
Alignment explanation
Indices: 9203663--9203784 Score: 154
Period size: 23 Copynumber: 5.3 Consensus size: 23
9203653 AGTTTTATTG
*
9203663 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9203686 TTCAGTGGTGGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
9203709 AACAGTGGTAGCTTTGGCTCCAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9203732 TTCAGTGGTATCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
9203755 AACCGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9203778 ATCAGTG
1 ATCAGTG
9203785 TTGCACTTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9203718 original size:46 final size:46
Alignment explanation
Indices: 9203665--9203784 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
9203655 TTTTATTGAT
*
9203665 CAGTGGTAGCTTTGGCTACATTTCAGTGGTGGCTTCGGCTACATAA
1 CAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* *
9203711 CAGTGGTAGCTTTGGCTCCATTTCAGTGGTATCTTCGGCTACATAA
1 CAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* * *
9203757 CCGTGGTAGCTTCGGCTACATATCAGTG
1 CAGTGGTAGCTTTGGCTACATTTCAGTG
9203785 TTGCACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.33
Consensus pattern (46 bp):
CAGTGGTAGCTTTGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:9204043 original size:15 final size:16
Alignment explanation
Indices: 9204013--9204045 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9204003 TAGTTATATG
9204013 TTAAAAGAGTTAATTA
1 TTAAAAGAGTTAATTA
*
9204029 TTAAATGAG-TAATTA
1 TTAAAAGAGTTAATTA
9204044 TT
1 TT
9204046 GTTTACATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
TTAAAAGAGTTAATTA
Found at i:9211114 original size:23 final size:23
Alignment explanation
Indices: 9211088--9211168 Score: 162
Period size: 23 Copynumber: 3.5 Consensus size: 23
9211078 AGTGTTATTG
9211088 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
9211111 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
9211134 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
9211157 ATCAGTGGTAGC
1 ATCAGTGGTAGC
9211169 AACTACATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:9216058 original size:21 final size:19
Alignment explanation
Indices: 9216015--9216059 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
9216005 ACATCGTTTT
* *
9216015 CAGAAGCTCGAAGGCTGAA
1 CAGAAGCTCGAAAGCTAAA
9216034 CAGAAGCTCATGAAAGCTAAA
1 CAGAAGCTC--GAAAGCTAAA
9216055 CAGAA
1 CAGAA
9216060 TACCATCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (19 bp):
CAGAAGCTCGAAAGCTAAA
Found at i:9216289 original size:101 final size:101
Alignment explanation
Indices: 9216101--9216340 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 101
9216091 AATTCATCCT
* * *
9216101 TTACATTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
* * * **
9216166 CTTACGTATAAACATTGTCATGGTTCAACCATGGTC
66 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
*
9216202 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATAGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
9216267 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
66 CTTACATATAAACACTGCCATGGGCCAACCATGGTC
*
9216303 TTACGTTCATAGTGCCATAACCCAGTTATGGTTTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
9216341 GTCAATTCAT
Statistics
Matches: 129, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 129 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATAGT
CTTACATATAAACACTGCCATGGGCCAACCATGGTC
Found at i:9216334 original size:33 final size:33
Alignment explanation
Indices: 9216191--9216326 Score: 94
Period size: 33 Copynumber: 4.1 Consensus size: 33
9216181 TGTCATGGTT
*
9216191 CAACCATGGTCTTACGTTCATAGTGCCATAACC
1 CAACTATGGTCTTACGTTCATAGTGCCATAACC
** * * * *
9216224 CAGTTATGGTCTTATC-ATCAGAATGCCATAGCC
1 CAACTATGGTCTTA-CGTTCATAGTGCCATAACC
* * * * * ***
9216257 CAACTATAGTCTTACATATAAACACTGCCATGGGC
1 CAACTATGGTCTTACGT-T-CATAGTGCCATAACC
*
9216292 CAACCATGGTCTTACGTTCATAGTGCCATAACC
1 CAACTATGGTCTTACGTTCATAGTGCCATAACC
9216325 CA
1 CA
9216327 GTTATGGTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 8
0.69 0.23 0.07
Matches are distributed among these distances:
32 1 0.01
33 46 0.62
34 3 0.04
35 24 0.32
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (33 bp):
CAACTATGGTCTTACGTTCATAGTGCCATAACC
Found at i:9218316 original size:11 final size:11
Alignment explanation
Indices: 9218263--9218320 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
9218253 TTTTATACTA
9218263 AATAAAATAAT
1 AATAAAATAAT
*
9218274 AACAAAATAAT
1 AATAAAATAAT
**
9218285 AATAAAACATCTT
1 AAT-AAA-ATAAT
* *
9218298 ATTAAAATATT
1 AATAAAATAAT
9218309 AATAAAATAAT
1 AATAAAATAAT
9218320 A
1 A
9218321 TTTATCTAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 26 0.70
12 6 0.16
13 5 0.14
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:9219724 original size:44 final size:44
Alignment explanation
Indices: 9219672--9219815 Score: 252
Period size: 44 Copynumber: 3.3 Consensus size: 44
9219662 TTTTAATTGT
*
9219672 TATTATTAAATGAGATAATTAATTTAGCGTGGATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
*
9219716 TACTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
* *
9219760 TATTATTAAATGAGATAATTAATTTAGTGTAAATATCTTTTCAA
1 TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
9219804 TATTATTAAATG
1 TATTATTAAATG
9219816 GTTTGTATGA
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 95 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (44 bp):
TATTATTAAATGAGATAATTAATTTAGCGTGAATATCTTTTCAA
Found at i:9219814 original size:21 final size:21
Alignment explanation
Indices: 9219747--9219814 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
9219737 ATTTAGCGTG
9219747 AATATCTTTTCAATATTATTA
1 AATATCTTTTCAATATTATTA
** *
9219768 AATGAGATAATT-AAT-TTAGTGTA
1 AAT-ATCT-TTTCAATATTA-T-TA
9219791 AATATCTTTTCAATATTATTA
1 AATATCTTTTCAATATTATTA
9219812 AAT
1 AAT
9219815 GGTTTGTATG
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
21 13 0.37
22 12 0.34
23 10 0.29
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (21 bp):
AATATCTTTTCAATATTATTA
Found at i:9225967 original size:88 final size:88
Alignment explanation
Indices: 9225786--9225956 Score: 202
Period size: 88 Copynumber: 1.9 Consensus size: 88
9225776 AGCCTTTATA
* * ** *
9225786 TTTTTTGCACTTAATTGAGTACTTAAACTTTCAAAATGCATCGAAAAACCCCTTAAACTTTTCAA
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATAAAAAAACCCCTAAAACTTTTCAA
* *
9225851 AATAAGCAATGATGCCCCTATTT
66 AATAAGCAATGAAGCCCCTATCT
* * *
9225874 TTTTTTGCACTCAATTGCGTACTTAAATTTTCAAAATACATAAAAAAGA-CCCTCAAAATTTTTC
1 TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATAAAAAA-ACCCCT-AAAACTTTTC
*
9225938 AATAA-AAGCAATTAAGCCC
64 AA-AATAAGCAATGAAGCCC
9225957 TTGCTTTTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
88 45 0.64
89 23 0.33
90 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (88 bp):
TTTTTTGCACTCAATTGAGTACTTAAACTTTCAAAATACATAAAAAAACCCCTAAAACTTTTCAA
AATAAGCAATGAAGCCCCTATCT
Found at i:9226193 original size:20 final size:19
Alignment explanation
Indices: 9226145--9226209 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
9226135 TAAAAATCAA
9226145 TAAAAA-TTAA-AAAAAAT
1 TAAAAATTTAATAAAAAAT
*
9226162 TATTAAATTTTAATAAAAAAT
1 TA--AAAATTTAATAAAAAAT
*
9226183 GTAAAAATTT-ATTAAAAAT
1 -TAAAAATTTAATAAAAAAT
9226202 TAGAAAAT
1 TA-AAAAT
9226210 AATTATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 16 0.41
20 10 0.26
21 7 0.18
22 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAATTTAATAAAAAAT
Found at i:9226501 original size:32 final size:33
Alignment explanation
Indices: 9226431--9226504 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
9226421 NNTGATTTTT
* *
9226431 ATAATTTTT-TTTATTTTTTAAATAAATTGTAA
1 ATAATTTTTATATATTTTTTAAATAAAATGTAA
* *
9226463 AT--TTTTTATATATTTTTTTATTAAAAT-TAA
1 ATAATTTTTATATATTTTTTAAATAAAATGTAA
9226493 ATAATTTTTATA
1 ATAATTTTTATA
9226505 ACTTTTATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.29
31 15 0.43
32 10 0.29
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (33 bp):
ATAATTTTTATATATTTTTTAAATAAAATGTAA
Found at i:9228717 original size:23 final size:23
Alignment explanation
Indices: 9228627--9228717 Score: 98
Period size: 23 Copynumber: 4.1 Consensus size: 23
9228617 TACCTGATCA
*
9228627 ATATACGACTCAT-AAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
* ** *
9228649 A-A-ACGACGCACGAGGTGCCTG
1 ATATACGACACATAAAGTGCCTG
* *
9228670 AAATACGACACATAAAGTGTCTG
1 ATATACGACACATAAAGTGCCTG
9228693 ATATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
9228716 AT
1 AT
9228718 CGGCAAAGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.12
21 10 0.18
22 2 0.04
23 37 0.66
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:9229074 original size:26 final size:25
Alignment explanation
Indices: 9229041--9229090 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9229031 TAGTTCAATA
9229041 ATTCAATTCAA-ACCATTTCAATTTCT
1 ATTCAATT-AACA-CATTTCAATTTCT
*
9229067 ATTCAATTATCACATTTCAATTTC
1 ATTCAATTAACACATTTCAATTTC
9229091 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTCAATTAACACATTTCAATTTCT
Found at i:9229961 original size:12 final size:13
Alignment explanation
Indices: 9229941--9229972 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9229931 TCTTTTCTTC
9229941 TTTGTTTTGTTTG
1 TTTGTTTTGTTTG
9229954 TTTG-TTTGTTTG
1 TTTGTTTTGTTTG
9229966 TTT-TTTT
1 TTTGTTTT
9229973 ATTTTACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (13 bp):
TTTGTTTTGTTTG
Found at i:9230046 original size:14 final size:14
Alignment explanation
Indices: 9230010--9230042 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9230000 ATTAGTTAAC
9230010 AATAATAATAATGAT
1 AATAAT-ATAATGAT
9230025 AATAATATAAT-AT
1 AATAATATAATGAT
9230038 AATAA
1 AATAA
9230043 ATATCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATATAATGAT
Found at i:9232129 original size:22 final size:22
Alignment explanation
Indices: 9232103--9232147 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9232093 CTGTCAAACA
9232103 TTACTGTCTCCATTATGTGTTT
1 TTACTGTCTCCATTATGTGTTT
9232125 TTACTGTCTCCATTATGTGTTT
1 TTACTGTCTCCATTATGTGTTT
9232147 T
1 T
9232148 GTCCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (22 bp):
TTACTGTCTCCATTATGTGTTT
Found at i:9247897 original size:120 final size:120
Alignment explanation
Indices: 9247731--9248150 Score: 710
Period size: 120 Copynumber: 3.5 Consensus size: 120
9247721 GCCAATTGCT
*
9247731 TATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
*
9247796 TTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
* *
9247851 TATATTATGATTTTAGTAAATTCATATAAGAATATTTCATACTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
*
9247916 TTATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
9247971 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAA--TTATTAAATTATATA
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
9248034 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTA
66 TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
*
9248087 TATATTATGATTTTATTAGTAAATTCATATAAGAATA-TT--TATTAACAATTTTATTAAATTAT
1 TATATTATGA--TT-TTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAT
9248149 AT
63 AT
9248151 TTTATAACAG
Statistics
Matches: 286, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
116 26 0.09
117 3 0.01
118 74 0.26
119 22 0.08
120 161 0.56
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (120 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
Found at i:9247957 original size:26 final size:28
Alignment explanation
Indices: 9247897--9248078 Score: 113
Period size: 28 Copynumber: 6.4 Consensus size: 28
9247887 TCATACTAAG
* * *
9247897 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
9247925 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* *
9247951 AATTATATTTTATAGTATTATATATTATGATTT
1 AATTATA-TTTA-A-TA--ATATATTATTATTA
* * * * * *
9247984 TAGTAAATTCATATAAGAATATTTAATATTA
1 AATTATATTTA-ATAA-TATA-TTATTATTA
* * * *
9248015 AGAAT-TATTAAATTATATATTTTTATTA
1 A-ATTATATTTAATAATATATTATTATTA
9248043 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
9248069 AATTATATTT
1 AATTATATTT
9248079 TAGTATTATA
Statistics
Matches: 118, Mismatches: 25, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
26 23 0.19
27 17 0.14
28 33 0.28
29 6 0.05
30 6 0.05
31 15 0.13
32 12 0.10
33 6 0.05
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:9251019 original size:565 final size:565
Alignment explanation
Indices: 9249946--9251078 Score: 2194
Period size: 565 Copynumber: 2.0 Consensus size: 565
9249936 CATTGAATTT
9249946 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
1 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
*
9250011 ACACTATCAAGTGTAGCACCCTCTCTTTCTTGTAGACATAAATAAAACCCATTGTTGGCTTTTCA
66 ACACTATCAAGTGTAGCACCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
* *
9250076 TTGCCATTACACATTCTCAGCCCTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
131 TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
9250141 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
196 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
*
9250206 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGCGA
261 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
*
9250271 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAGACTCTCGAAGGTCC
326 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
9250336 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
391 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
9250401 ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
456 ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
9250466 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
521 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
9250511 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
1 CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
*
9250576 ACACTATCAAGTGTAGCATCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
66 ACACTATCAAGTGTAGCACCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
9250641 TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
131 TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
9250706 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
196 ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
9250771 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
261 GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
9250836 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
326 GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
9250901 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
391 TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
* *
9250966 ACCAATGATGTTTAGCCAATTCACAAAATTTACTTTTTAAATAGATTAGGTAACAAATATGTTAA
456 ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
9251031 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
521 ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
9251076 CTT
1 CTT
9251079 ATCGAAACTA
Statistics
Matches: 560, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
565 560 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (565 bp):
CTTCTTCAATGTTTTCATTATCAGTGTCTTTGAGTAACTCTTTAGGCAACCATGAAGAATTATTT
ACACTATCAAGTGTAGCACCCTCTCTTTCTTGCAGACATAAATAAAACCCATTGTTGGCTTTTCA
TCGCCATTACACATTCTCAGCACTTTAAGAAAACACTATTCCATGTTTGGTTAAAAAAACACCTA
ATTGGTCACTAAAAAATTTCCCACCATTGTCACTTCGAAATACTTATATTCTCACACCAAATTGT
GTTTTAATAAAAATACATTTTTAACTTCAGATTTATCTTTTAATAAAAACACCCAACAAATGAGA
GTATGATCATCAATAAATGTGACAAACCAACGTTTTCCTAAAAAAGTTGAAACTCTCGAAGGTCC
TCAAATATCACTATGAATTAACGAAAAATGTTTGGAAGCTTTATATTTTTGAGGTGAAAAGAATG
ACCAATGATATTTAGCCAATTCACAAAATTTACTTTTTAAATAGATCAGGTAACAAATATGTTAA
ATAGTAAAAATTAAGATGTCCAAGCCTATAATATCAAATCATAAC
Found at i:9251592 original size:19 final size:19
Alignment explanation
Indices: 9251568--9251625 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
9251558 TTCCTAAGTG
9251568 AATGGAGACCCTTCTATAT
1 AATGGAGACCCTTCTATAT
9251587 AATGGAGACCCTTCTATAT
1 AATGGAGACCCTTCTATAT
9251606 AATGGAGACCCTTCTATAT
1 AATGGAGACCCTTCTATAT
9251625 A
1 A
9251626 GCTTTGGCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (19 bp):
AATGGAGACCCTTCTATAT
Found at i:9259368 original size:6 final size:6
Alignment explanation
Indices: 9259343--9259417 Score: 118
Period size: 6 Copynumber: 12.5 Consensus size: 6
9259333 TATAGATATA
9259343 TTTTC- TTTTC- TTTTCTT TTTTCTT TTTTCT TTTTCT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTTTC-T TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT
9259391 TTTTCT TTTTCT TTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTT
9259418 GAACATGAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
5 10 0.15
6 46 0.68
7 12 0.18
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:9260418 original size:18 final size:17
Alignment explanation
Indices: 9260387--9260447 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
9260377 AAATAATTCT
9260387 AAGAAAAT-AAAAATAA
1 AAGAAAATAAAAAATAA
9260403 ACAGAAAATAAAAAATAA
1 A-AGAAAATAAAAAATAA
*
9260421 AA-AATAATAAGAAAAGAA
1 AAGAA-AATAA-AAAATAA
9260439 AAGAAAATA
1 AAGAAAATA
9260448 GACTCAATGA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 3 0.08
17 13 0.33
18 21 0.54
19 2 0.05
ACGTcount: A:0.79, C:0.02, G:0.08, T:0.11
Consensus pattern (17 bp):
AAGAAAATAAAAAATAA
Found at i:9260423 original size:25 final size:24
Alignment explanation
Indices: 9260390--9260440 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
9260380 TAATTCTAAG
*
9260390 AAAATAAAAATAA-ACAGAAAATAA
1 AAAATAAAAATAATA-AGAAAAGAA
9260414 AAAATAAAAAATAATAAGAAAAGAA
1 AAAAT-AAAAATAATAAGAAAAGAA
9260439 AA
1 AA
9260441 GAAAATAGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 18 0.75
26 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (24 bp):
AAAATAAAAATAATAAGAAAAGAA
Found at i:9262974 original size:24 final size:24
Alignment explanation
Indices: 9262942--9263004 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
9262932 TCGAGCTGTA
*
9262942 ATCGAGAAGCTCATACGAGCCA-AT
1 ATCGGGAAGCTCATA-GAGCCATAT
* **
9262966 ATTGGGAAGCTCCGGAGAGCCATAT
1 ATCGGGAAGCT-CATAGAGCCATAT
9262991 ATCGGGAAGCTCAT
1 ATCGGGAAGCTCAT
9263005 GAAAGAGCCT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (24 bp):
ATCGGGAAGCTCATAGAGCCATAT
Found at i:9263035 original size:27 final size:27
Alignment explanation
Indices: 9262958--9263036 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
9262948 AAGCTCATAC
* *
9262958 GAGCCA-ATATTGGGAAGCTCCGG--A
1 GAGCCATATATCGAGAAGCTCCGGAAA
* **
9262982 GAGCCATATATCGGGAAGCTCATGAAA
1 GAGCCATATATCGAGAAGCTCCGGAAA
*
9263009 GAGCC-TTTAATCGAGAAGCTCCGGAAA
1 GAGCCATAT-ATCGAGAAGCTCCGGAAA
9263036 G
1 G
9263037 TCCTATATCC
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 6 0.14
25 14 0.32
26 2 0.05
27 22 0.50
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (27 bp):
GAGCCATATATCGAGAAGCTCCGGAAA
Found at i:9263215 original size:24 final size:24
Alignment explanation
Indices: 9263156--9263216 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
9263146 GTATCAGGTA
* * * *
9263156 GCTCAAGAGAGCCAATATCGGGAT
1 GCTCATGAGAGCTAATAACGGGAC
9263180 GCTCATGAGAGCTAATAACGGGAC
1 GCTCATGAGAGCTAATAACGGGAC
* *
9263204 GCTCTTGGGAGCT
1 GCTCATGAGAGCT
9263217 GTGGTATGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.31, T:0.20
Consensus pattern (24 bp):
GCTCATGAGAGCTAATAACGGGAC
Found at i:9272640 original size:31 final size:31
Alignment explanation
Indices: 9272602--9272670 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
9272592 CCTTAACCAT
*
9272602 ATTAAATTACCACAATAGTTAGTACATCCCA
1 ATTAAATTACCACAATAGTTAGTACATCACA
* * *
9272633 ATTAAATTACCATATTAGTTAGTATATCACA
1 ATTAAATTACCACAATAGTTAGTACATCACA
9272664 ATTAAAT
1 ATTAAAT
9272671 AAAAAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (31 bp):
ATTAAATTACCACAATAGTTAGTACATCACA
Found at i:9273614 original size:26 final size:27
Alignment explanation
Indices: 9273565--9273624 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
9273555 AAAAATAACT
9273565 AAAATATTATAACTTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
9273592 AAAATATTATAA-TTTTTTTATTTACC
1 AAAATATTATAACTTTTTTTATTTACC
9273618 AAAATAT
1 AAAATAT
9273625 ACCAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTACC
Found at i:9273765 original size:4 final size:4
Alignment explanation
Indices: 9273758--9273844 Score: 52
Period size: 4 Copynumber: 20.0 Consensus size: 4
9273748 GAAGGAGAGG
* * *
9273758 GAAA GAAA GAAA GAAA GAAA GGAAG GAGAG GAAA GAAA GACAAA GAAG
1 GAAA GAAA GAAA GAAA GAAA -GAAA GA-AA GAAA GAAA G--AAA GAAA
9273806 GAAA GAAAA GGAAA GGAGAA GAGAA -AAA -AAA GAAA GAAA
1 GAAA G-AAA -GAAA -GA-AA GA-AA GAAA GAAA GAAA GAAA
9273845 AAGAAGGCAA
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
3 5 0.07
4 38 0.54
5 21 0.30
6 7 0.10
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:9273783 original size:31 final size:32
Alignment explanation
Indices: 9273746--9273851 Score: 108
Period size: 35 Copynumber: 3.2 Consensus size: 32
9273736 TGGGGGGGGG
9273746 GAGAAGGAGAGGGAAAGAAAGAAAGAAAGAAA
1 GAGAAGGAGAGGGAAAGAAAGAAAGAAAGAAA
*
9273778 G-GAAGGAGA-GGAAAGAAAGACAAAGAAGGAAA
1 GAGAAGGAGAGGGAAAGAAAG--AAAGAAAGAAA
* * *
9273810 GAAAAGGAAAGGAGAAGAGAAAAAAAAGAAAGAAA
1 GAGAAGGAGAGG-GAA-AG-AAAGAAAGAAAGAAA
*
9273845 AAGAAGG
1 GAGAAGG
9273852 CAAGAAAAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
30 10 0.17
31 8 0.13
32 12 0.20
33 6 0.10
34 1 0.02
35 18 0.30
36 2 0.03
37 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.35, T:0.00
Consensus pattern (32 bp):
GAGAAGGAGAGGGAAAGAAAGAAAGAAAGAAA
Found at i:9273793 original size:18 final size:18
Alignment explanation
Indices: 9273770--9273824 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
9273760 AAGAAAGAAA
9273770 GAAAGAAAGGAAGGAGAG
1 GAAAGAAAGGAAGGAGAG
* *
9273788 GAAAGAAAGACAAAGA-AG
1 GAAAGAAAG-GAAGGAGAG
9273806 GAAAGAAAAGGAAAGGAGA
1 GAAAG-AAAGG-AAGGAGA
9273825 AGAGAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 16 0.55
19 12 0.41
20 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.36, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGGAAGGAGAG
Found at i:9273842 original size:45 final size:44
Alignment explanation
Indices: 9273789--9273894 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 44
9273779 GAAGGAGAGG
9273789 AAAGAAAGACAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAA
1 AAAGAAAGA-AAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAA
* * *
9273834 AAAGAAAGAAAAAGAAGGCAAGAAAAGGAAATGAGAAGAGGAAAA
1 AAAGAAAG-AAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAA
9273879 AAA-AAAGAAGAAGAAG
1 AAAGAAAGAA-AAGAAG
9273895 AGGGAAGGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
43 2 0.04
44 10 0.18
45 43 0.77
46 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.01
Consensus pattern (44 bp):
AAAGAAAGAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAA
Found at i:9276475 original size:11 final size:11
Alignment explanation
Indices: 9276459--9276485 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9276449 TTTATAACTT
9276459 AATTTGGATAC
1 AATTTGGATAC
9276470 AATTTGGATAC
1 AATTTGGATAC
9276481 AATTT
1 AATTT
9276486 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:9279721 original size:27 final size:26
Alignment explanation
Indices: 9279683--9279776 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
9279673 AACACGAGTA
*
9279683 GTGCCGTCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCAGT-TGGCACCATTG
** *
9279710 GTGCCGCCAATCTCCTTGACACCATTG
1 GTGCCGCCAATC-AGTTGGCACCATTG
* *
9279737 GTGCCGCCAATGGC-TTTGGCACCTTTG
1 GTGCCGCCAAT--CAGTTGGCACCATTG
9279764 GTGCCGCCAATCA
1 GTGCCGCCAATCA
9279777 CCTTGGCCTG
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
25 1 0.02
27 53 0.95
28 1 0.02
29 1 0.02
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (26 bp):
GTGCCGCCAATCAGTTGGCACCATTG
Found at i:9279782 original size:27 final size:27
Alignment explanation
Indices: 9279699--9279783 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
9279689 TCAATCAGTA
*
9279699 TGGCACCATTGGTGCCGCCAATCTCCT
1 TGGCACCATTGGTGCCGCCAATCACCT
* ** *
9279726 TGACACCATTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATCACCT
*
9279753 TGGCACCTTTGGTGCCGCCAATCACCT
1 TGGCACCATTGGTGCCGCCAATCACCT
9279780 TGGC
1 TGGC
9279784 CTGACCAGGG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.15, C:0.34, G:0.25, T:0.26
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATCACCT
Found at i:9285165 original size:27 final size:27
Alignment explanation
Indices: 9285127--9285180 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
9285117 ATCTAATGAG
9285127 AGAATGTAAAATTATTATTACAGAATA
1 AGAATGTAAAATTATTATTACAGAATA
9285154 AGAATGTAAAATTATTATTACAGAATA
1 AGAATGTAAAATTATTATTACAGAATA
9285181 TGAAGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (27 bp):
AGAATGTAAAATTATTATTACAGAATA
Found at i:9289400 original size:24 final size:27
Alignment explanation
Indices: 9289358--9289425 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 27
9289348 AATGGAGTTC
*
9289358 TTATAAATAAATACT-AATAACT-TTA
1 TTATAAATAAATATTAAATAACTATTA
* *
9289383 TT-TAAATATA-ATTAAATAATTATTA
1 TTATAAATAAATATTAAATAACTATTA
9289408 TTATAAATAAATATTAAA
1 TTATAAATAAATATTAAA
9289426 CCCGAGACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 2 0.06
24 13 0.37
25 7 0.20
26 7 0.20
27 6 0.17
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
TTATAAATAAATATTAAATAACTATTA
Found at i:9293187 original size:2 final size:2
Alignment explanation
Indices: 9293180--9293209 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9293170 ACCAAATCCG
9293180 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9293210 CACATCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9294005 original size:28 final size:30
Alignment explanation
Indices: 9293939--9294008 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
9293929 AATACTAAAA
*
9293939 TTATACATGAACTATGGTTTAATGTGCAATT
1 TTATACATGAACTATGATTT-ATGTGCAATT
* *
9293970 GTATACATGAACT-TGATTT-TGTTCAATT
1 TTATACATGAACTATGATTTATGTGCAATT
9293998 TTATACATGAA
1 TTATACATGAA
9294009 ATTTTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.51
30 5 0.14
31 12 0.34
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (30 bp):
TTATACATGAACTATGATTTATGTGCAATT
Found at i:9297019 original size:20 final size:20
Alignment explanation
Indices: 9296994--9297038 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
9296984 TCCTATATTG
* * *
9296994 ATACAAGTTCACTTTTATCC
1 ATACAAGTCCACTTCTACCC
9297014 ATACAAGTCCACTTCTACCC
1 ATACAAGTCCACTTCTACCC
9297034 ATACA
1 ATACA
9297039 TCTTGTGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (20 bp):
ATACAAGTCCACTTCTACCC
Found at i:9302368 original size:17 final size:18
Alignment explanation
Indices: 9302346--9302379 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9302336 GAACGGGGGA
9302346 AAAAGAA-AAAGGGAAAG
1 AAAAGAAGAAAGGGAAAG
9302363 AAAAGAAGAAAGGGAAA
1 AAAAGAAGAAAGGGAAA
9302380 ATTAGGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAAAGGGAAAG
Found at i:9303002 original size:16 final size:16
Alignment explanation
Indices: 9302981--9303019 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9302971 TTATGTGTAT
9302981 GGTAAG-CAAATAATAA
1 GGTAAGTCAAAT-ATAA
*
9302997 GGTAAGTGAAATATAA
1 GGTAAGTCAAATATAA
9303013 GGTAAGT
1 GGTAAGT
9303020 ATTATTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.23
Consensus pattern (16 bp):
GGTAAGTCAAATATAA
Found at i:9305861 original size:18 final size:18
Alignment explanation
Indices: 9305838--9305872 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9305828 TTAATTCTTA
9305838 CTTTTATCACTTATTTGC
1 CTTTTATCACTTATTTGC
*
9305856 CTTTTATCACTTTTTTG
1 CTTTTATCACTTATTTG
9305873 ATTTAGTCCC
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:0.14, C:0.20, G:0.06, T:0.60
Consensus pattern (18 bp):
CTTTTATCACTTATTTGC
Found at i:9306659 original size:25 final size:25
Alignment explanation
Indices: 9306616--9306683 Score: 91
Period size: 25 Copynumber: 2.6 Consensus size: 25
9306606 AAAATTAAGA
*
9306616 TTAGAACTTAGAACTTAAGTTTAGAAC
1 TTAGAA-TTAG-ATTTAAGTTTAGAAC
*
9306643 TTCGAATTAGATTTAAGTTTAGAAC
1 TTAGAATTAGATTTAAGTTTAGAAC
*
9306668 TTAGGATTAGATTTAA
1 TTAGAATTAGATTTAA
9306684 TAAGGATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 28 0.76
26 4 0.11
27 5 0.14
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (25 bp):
TTAGAATTAGATTTAAGTTTAGAAC
Found at i:9311699 original size:28 final size:29
Alignment explanation
Indices: 9311645--9311699 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
9311635 AATTGTAAAT
* *
9311645 GGTTTCTAGTTAAGCCATTAAAGCTAGAG
1 GGTTTCTAGTTAAGCCATAAAAACTAGAG
* *
9311674 GGTTT-TAGTTTAGGCATAAAAACTAG
1 GGTTTCTAGTTAAGCCATAAAAACTAG
9311700 GGGGAAGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.33
Consensus pattern (29 bp):
GGTTTCTAGTTAAGCCATAAAAACTAGAG
Found at i:9312128 original size:29 final size:29
Alignment explanation
Indices: 9312086--9312158 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
9312076 ATTTCTTTTT
9312086 TGGTCACCCAACTATGAAAAGTTAAAAAA
1 TGGTCACCCAACTATGAAAAGTTAAAAAA
* * *
9312115 TGGTCACCTAACTATGAGAAGTTACAAAA
1 TGGTCACCCAACTATGAAAAGTTAAAAAA
**
9312144 TAATCACCCAACTAT
1 TGGTCACCCAACTAT
9312159 TCAATATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (29 bp):
TGGTCACCCAACTATGAAAAGTTAAAAAA
Found at i:9313073 original size:48 final size:48
Alignment explanation
Indices: 9313018--9313114 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
9313008 CTATTTTAAC
*
9313018 CATGCCATATCAAAACATACTTAATTTATAATAGATTAAACATTACTA
1 CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATTACTA
*
9313066 CATGCCATATCAAAACATACTCAATTTATGATAGATTAAACATTACTA
1 CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATTACTA
9313114 C
1 C
9313115 GTGATACCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (48 bp):
CATGCCATATCAAAACATACTCAATTTATAATAGATTAAACATTACTA
Found at i:9318354 original size:9 final size:9
Alignment explanation
Indices: 9318340--9318367 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9318330 TCTTGAATTC
9318340 TTGATAAGA
1 TTGATAAGA
9318349 TTGATAAGA
1 TTGATAAGA
9318358 TTGATAAGA
1 TTGATAAGA
9318367 T
1 T
9318368 AGGAGGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.21, T:0.36
Consensus pattern (9 bp):
TTGATAAGA
Found at i:9320182 original size:111 final size:111
Alignment explanation
Indices: 9319960--9320173 Score: 428
Period size: 111 Copynumber: 1.9 Consensus size: 111
9319950 ACAACTGTAA
9319960 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
1 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
9320025 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
66 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
9320071 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
1 AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
9320136 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAA
66 TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAA
9320174 GACACTGCAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 103 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (111 bp):
AAAACATTATACTTGAGCTAACAAAGACAACCTTTTCCTAGAATACCTGTCCACTTATCACCATC
TTCTATGAAAGCATGCAATGCATTGACACCATTTTCAAATAACTGC
Found at i:9331478 original size:219 final size:219
Alignment explanation
Indices: 9331094--9331531 Score: 831
Period size: 219 Copynumber: 2.0 Consensus size: 219
9331084 TGTTGGCACG
9331094 TTTATTTGTGCTGGCATTACCGGCCTCAATGAAGGGTACACTGTAGACTACTAAACTAGTTGAAA
1 TTTATTTGTGCTGGCATTACCGGCCTCAATGAAGGGTACACTGTAGACTACTAAACTAGTTGAAA
9331159 CAGGAAACCGGAACTTAAAACATTTCTACAATTTGACATCTGTTTTACATTTCACTGACCTGATT
66 CAGGAAACCGGAACTTAAAACATTTCTACAATTTGACATCTGTTTTACATTTCACTGACCTGATT
* *
9331224 TTCTCTACCCAGTTCACAGCAGGTGATGCTGGGGTCTTAGATTTTTCTACTGTCTCTAATGCAAG
131 TTCTCTACCCAGTTCACAGCAGGTGATGCTGGGGTCTCAGATTTTTCTACTGTCTCTAATACAAG
*
9331289 AAGATTAGCATTTTTCTTTTGTTT
196 AAGATCAGCATTTTTCTTTTGTTT
9331313 TTTATTTGTGCTGGCATTACCGGCCTCAATGAAGGGTACACTGTAGACTACTAAACTAGTTGAAA
1 TTTATTTGTGCTGGCATTACCGGCCTCAATGAAGGGTACACTGTAGACTACTAAACTAGTTGAAA
9331378 CAGGAAACCGGAACTTAAAACATTTCTACAATTTGACATCTGTTTTACATTTCACTGACCTGATT
66 CAGGAAACCGGAACTTAAAACATTTCTACAATTTGACATCTGTTTTACATTTCACTGACCTGATT
* *
9331443 TTCTCTACCCAGTTCACAGCAGGTGATGTTGGGGTCTCAGATTTTTCTACTGTCTCTAATACAGG
131 TTCTCTACCCAGTTCACAGCAGGTGATGCTGGGGTCTCAGATTTTTCTACTGTCTCTAATACAAG
9331508 AAGATCAGCATTTTTCTTTTGTTT
196 AAGATCAGCATTTTTCTTTTGTTT
9331532 CTCCATTATC
Statistics
Matches: 214, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
219 214 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (219 bp):
TTTATTTGTGCTGGCATTACCGGCCTCAATGAAGGGTACACTGTAGACTACTAAACTAGTTGAAA
CAGGAAACCGGAACTTAAAACATTTCTACAATTTGACATCTGTTTTACATTTCACTGACCTGATT
TTCTCTACCCAGTTCACAGCAGGTGATGCTGGGGTCTCAGATTTTTCTACTGTCTCTAATACAAG
AAGATCAGCATTTTTCTTTTGTTT
Found at i:9334634 original size:20 final size:20
Alignment explanation
Indices: 9334609--9334646 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9334599 CTTATATTTA
9334609 ATTTTAA-TGTTTATTTTAGT
1 ATTTTAAGT-TTTATTTTAGT
9334629 ATTTTAAGTTTTATTTTA
1 ATTTTAAGTTTTATTTTA
9334647 TCCCAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (20 bp):
ATTTTAAGTTTTATTTTAGT
Found at i:9335038 original size:9 final size:9
Alignment explanation
Indices: 9335026--9335070 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
9335016 TATATATAAT
9335026 TTTAAAAAA
1 TTTAAAAAA
9335035 TTTAAAAAA
1 TTTAAAAAA
* *
9335044 TATATATAAA
1 TTTA-AAAAA
*
9335054 GTTAAAAAA
1 TTTAAAAAA
9335063 TTTAAAAA
1 TTTAAAAA
9335071 TTATATATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
9 23 0.79
10 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:9335049 original size:28 final size:28
Alignment explanation
Indices: 9335009--9335078 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
9334999 GAATTACCTA
**
9335009 AAAATAATATATATAATTTTAAAAAATTT
1 AAAA-AATATATATAAAGTTAAAAAATTT
9335038 AAAAAATATATATAAAGTTAAAAAATTT
1 AAAAAATATATATAAAGTTAAAAAATTT
*
9335066 AAAAATTATATAT
1 AAAAAATATATAT
9335079 CTAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 34 0.89
29 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
AAAAAATATATATAAAGTTAAAAAATTT
Found at i:9341654 original size:18 final size:19
Alignment explanation
Indices: 9341631--9341669 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9341621 AATAAAATCG
9341631 TAAAAA-AATAAAATATTA
1 TAAAAATAATAAAATATTA
* *
9341649 TAAAAATATTAAAATTTTA
1 TAAAAATAATAAAATATTA
9341668 TA
1 TA
9341670 TAAACTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAATAATAAAATATTA
Found at i:9343186 original size:31 final size:31
Alignment explanation
Indices: 9343148--9343209 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9343138 AGATAAAATG
* *
9343148 ATCATTGAATTGTTTGAAAGTTTTCATTTAA
1 ATCATTGAACTATTTGAAAGTTTTCATTTAA
*
9343179 ATCATTGAACTATTTGAAAGTTTTTATTTAA
1 ATCATTGAACTATTTGAAAGTTTTCATTTAA
9343210 GTTACTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.48
Consensus pattern (31 bp):
ATCATTGAACTATTTGAAAGTTTTCATTTAA
Found at i:9343414 original size:19 final size:19
Alignment explanation
Indices: 9343380--9343419 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9343370 TTTTGTTTAG
*
9343380 TTTTGTTACTTTAATTAACA
1 TTTTGTAACTTTAATT-ACA
9343400 TTTTGTAAC-TTAATTACA
1 TTTTGTAACTTTAATTACA
9343418 TT
1 TT
9343420 CAAACCAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 6 0.32
20 8 0.42
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTGTAACTTTAATTACA
Found at i:9343840 original size:53 final size:53
Alignment explanation
Indices: 9343760--9343868 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
9343750 ACATTCTTAG
*
9343760 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACTTGTCATTTTTCA
1 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
9343813 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
1 TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
9343866 TTC
1 TTC
9343869 TTCAAAACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (53 bp):
TTCCAATAATTGGTATCTATAGCTCATCTTCTTAGTGGACCTGTCATTTTTCA
Found at i:9355555 original size:23 final size:22
Alignment explanation
Indices: 9355491--9355555 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
9355481 TTTAAAATTA
*
9355491 AAATTT-AATACATTA-AAAAT
1 AAATTTAAATACTTTATAAAAT
* * *
9355511 AGATTTAAATAATTTTTAAAAAT
1 AAATTTAAATACTTTAT-AAAAT
9355534 AAATTTAAATACTTCTATAAAA
1 AAATTTAAATACTT-TATAAAA
9355556 ACAAAATCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 5 0.15
21 6 0.18
23 21 0.62
24 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATTTAAATACTTTATAAAAT
Found at i:9355769 original size:16 final size:14
Alignment explanation
Indices: 9355709--9355782 Score: 58
Period size: 17 Copynumber: 4.8 Consensus size: 14
9355699 TAAAACACAT
9355709 ATTTAAAAAATTAAA
1 ATTTAAAAAA-TAAA
*
9355724 ACCATTAAAAAATAGAA
1 A--TTTAAAAAATA-AA
9355741 ATTTAAAATAATAAA
1 ATTTAAAA-AATAAA
9355756 ATTGTTAAAAAATAAA
1 A-T-TTAAAAAATAAA
* *
9355772 TTTTAATAAAT
1 ATTTAAAAAAT
9355783 TTACATTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
14 8 0.16
15 11 0.22
16 13 0.27
17 17 0.35
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (14 bp):
ATTTAAAAAATAAA
Found at i:9355782 original size:14 final size:15
Alignment explanation
Indices: 9355728--9355782 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
9355718 ATTAAAACCA
*
9355728 TTAAAAAATAGAAAT-
1 TTAAAAAATA-AATTG
9355743 TTAAAATAATAAAATTG
1 TTAAAA-AAT-AAATTG
9355760 TTAAAAAATAAATT-
1 TTAAAAAATAAATTG
*
9355774 TTAATAAAT
1 TTAAAAAAT
9355783 TTACATTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
14 8 0.23
15 11 0.31
16 9 0.26
17 7 0.20
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (15 bp):
TTAAAAAATAAATTG
Found at i:9355832 original size:17 final size:18
Alignment explanation
Indices: 9355810--9355843 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9355800 TTTTTTAACG
9355810 TAATTTTTTA-ATAAATA
1 TAATTTTTTACATAAATA
9355827 TAATTTTTTACATAAAT
1 TAATTTTTTACATAAAT
9355844 TTTTTCACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTTTTTACATAAATA
Found at i:9357119 original size:22 final size:22
Alignment explanation
Indices: 9357080--9357127 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
9357070 ATCATAACTT
9357080 TAAT-TTTTTTAGAATTTA-AA
1 TAATATTTTTTAGAATTTATAA
*
9357100 TAATATTTTTTATAACTTTATAA
1 TAATATTTTTTAGAA-TTTATAA
9357123 -AATAT
1 TAATAT
9357128 ACAAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 9 0.38
23 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTTTTTAGAATTTATAA
Found at i:9358661 original size:30 final size:30
Alignment explanation
Indices: 9358591--9358662 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
9358581 CCCATCCATA
* *
9358591 TTATATTTTTTAATTTTAAAAATAATTATT
1 TTATATATTTTAATTTTAAAAATAATAATT
* **
9358621 TTATTTTATTTT-ATTTTAATATTTAATAATT
1 TTA-TATATTTTAATTTTAA-AAATAATAATT
9358652 TTATATATTTT
1 TTATATATTTT
9358663 TTATTTATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TTATATATTTTAATTTTAAAAATAATAATT
Found at i:9359140 original size:20 final size:19
Alignment explanation
Indices: 9359083--9359140 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 19
9359073 TAAAAATACC
*
9359083 TTTTATATATCTTACATATA
1 TTTTATAT-TATTACATATA
*
9359103 TTTTATAATTCACGTACATATA
1 TTTTAT-ATT-A-TTACATATA
9359125 TCTTTATATTATTACA
1 T-TTTATATTATTACA
9359141 ATTTGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 12 0.39
23 5 0.16
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTTATATTATTACATATA
Found at i:9359765 original size:107 final size:107
Alignment explanation
Indices: 9359579--9359856 Score: 457
Period size: 107 Copynumber: 2.6 Consensus size: 107
9359569 TTTACTAACA
9359579 TGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
1 TGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
* *
9359644 TAAAATAAGGCAATATTTCGCGTTTGGAAAATCAAGGAAACG
66 TAAAATAAGGCAATACTTCACGTTTGGAAAATCAAGGAAACG
* *
9359686 TGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCCTTTTTAAACTTT
1 TGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
*
9359751 TAAAATAAGGCAATACTTCACGTTTGGAAAATCCAGGAAACG
66 TAAAATAAGGCAATACTTCACGTTTGGAAAATCAAGGAAACG
* * * * * *
9359793 TGCCCTAATGTGCTGAGTTTCGATTTCTCGTCCGACTAAATAGCCAAATATCCTTTTAAAACTT
1 TGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTT
9359857 CAAAGTATGG
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 158 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (107 bp):
TGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
TAAAATAAGGCAATACTTCACGTTTGGAAAATCAAGGAAACG
Found at i:9360025 original size:14 final size:15
Alignment explanation
Indices: 9360004--9360034 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9359994 GAGGTATCGT
*
9360004 ATTTTTTTATTTTCG
1 ATTTTTTAATTTTCG
9360019 ATTTTTTAATTTTCG
1 ATTTTTTAATTTTCG
9360034 A
1 A
9360035 CACCAAGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (15 bp):
ATTTTTTAATTTTCG
Found at i:9360497 original size:23 final size:23
Alignment explanation
Indices: 9360455--9360498 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9360445 NNNNNNNNNG
* *
9360455 GCTTCGGCTACATTTTAGTGTTA
1 GCTTCGGCTACATATCAGTGTTA
9360478 GCTTCGGCTACATATCAGTGT
1 GCTTCGGCTACATATCAGTGT
9360499 GGGGAAGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (23 bp):
GCTTCGGCTACATATCAGTGTTA
Found at i:9369641 original size:13 final size:13
Alignment explanation
Indices: 9369623--9369647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9369613 TATTCGATCT
9369623 TTTTTACTTATTG
1 TTTTTACTTATTG
9369636 TTTTTACTTATT
1 TTTTTACTTATT
9369648 CACGAAAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTTACTTATTG
Found at i:9373663 original size:15 final size:14
Alignment explanation
Indices: 9373644--9373683 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
9373634 TTAACCTTTA
*
9373644 ATTAATTATAATTT
1 ATTAATTAAAATTT
9373658 ACTTAATTAAAATTT
1 A-TTAATTAAAATTT
9373673 GATTAATTAAA
1 -ATTAATTAAA
9373684 CATAAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (14 bp):
ATTAATTAAAATTT
Found at i:9376076 original size:53 final size:53
Alignment explanation
Indices: 9375996--9376114 Score: 222
Period size: 53 Copynumber: 2.3 Consensus size: 53
9375986 GGGGAGGTAT
9375996 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
1 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
*
9376049 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTACCAAAGTTGC
1 TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
9376102 TCATCAG-CCAAAC
1 TCATCAGCCCAAAC
9376115 CATTCGTTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
52 6 0.09
53 59 0.91
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (53 bp):
TCATCAGCCCAAACAAACATCCAAGCCATAGGTAACAACACTAACAAAGTTGC
Found at i:9383066 original size:22 final size:22
Alignment explanation
Indices: 9383038--9383079 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
9383028 AAGACTATAC
9383038 TTTCTGCAAACCATATTCTTAT
1 TTTCTGCAAACCATATTCTTAT
9383060 TTTCTGCAAACCATATTCTT
1 TTTCTGCAAACCATATTCTT
9383080 GATAGAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTCTGCAAACCATATTCTTAT
Found at i:9385157 original size:25 final size:25
Alignment explanation
Indices: 9385123--9385173 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9385113 GGATACCCAA
9385123 CTTAGTTTTCTAAGTTCAATGTGGT
1 CTTAGTTTTCTAAGTTCAATGTGGT
9385148 CTTAGTTTTCTAAGTTCAATGTGGT
1 CTTAGTTTTCTAAGTTCAATGTGGT
9385173 C
1 C
9385174 AAACAAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.47
Consensus pattern (25 bp):
CTTAGTTTTCTAAGTTCAATGTGGT
Found at i:9388387 original size:21 final size:21
Alignment explanation
Indices: 9388363--9388503 Score: 104
Period size: 21 Copynumber: 6.8 Consensus size: 21
9388353 TGGGAACCCG
* * *
9388363 TAAGGGTTAAACGGAAGCTCA
1 TAAGAGTTAAACTGAAACTCA
* * * *
9388384 TAAGAGCTGAACGGAAACCCA
1 TAAGAGTTAAACTGAAACTCA
* * *
9388405 TAAGGGTTAAACTTAAGCTCA
1 TAAGAGTTAAACTGAAACTCA
* * *
9388426 AAAGAGCTAAACTGAAACCCA
1 TAAGAGTTAAACTGAAACTCA
* * *
9388447 GAAGGGTTAAACTAAAACTCA
1 TAAGAGTTAAACTGAAACTCA
* *
9388468 TATGAGTT-AACTGAAGCTCA
1 TAAGAGTTAAACTGAAACTCA
*
9388488 TAAGAGCTAAACTGAA
1 TAAGAGTTAAACTGAA
9388504 TGCAAACACG
Statistics
Matches: 89, Mismatches: 30, Indels: 2
0.74 0.25 0.02
Matches are distributed among these distances:
20 16 0.18
21 73 0.82
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (21 bp):
TAAGAGTTAAACTGAAACTCA
Found at i:9388459 original size:42 final size:42
Alignment explanation
Indices: 9388347--9388459 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
9388337 GCACATAAAT
* * * *
9388347 GCTAAATGGGAACCC-GTAAGGGTTAAACGGAAGCTCATAAGA
1 GCTAAACGGAAACCCAG-AAGGGTTAAACTGAAGCTCAAAAGA
* * *
9388389 GCTGAACGGAAACCCATAAGGGTTAAACTTAAGCTCAAAAGA
1 GCTAAACGGAAACCCAGAAGGGTTAAACTGAAGCTCAAAAGA
*
9388431 GCTAAACTGAAACCCAGAAGGGTTAAACT
1 GCTAAACGGAAACCCAGAAGGGTTAAACT
9388460 AAAACTCATA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.17
Consensus pattern (42 bp):
GCTAAACGGAAACCCAGAAGGGTTAAACTGAAGCTCAAAAGA
Found at i:9397657 original size:701 final size:701
Alignment explanation
Indices: 9396314--9397715 Score: 2804
Period size: 701 Copynumber: 2.0 Consensus size: 701
9396304 ACCAGCTTTC
9396314 GATTCATTATCTATTTGACCTCAGGCTTTTACTTACATCAAAGTGTATGAGTCACGCGTACATAG
1 GATTCATTATCTATTTGACCTCAGGCTTTTACTTACATCAAAGTGTATGAGTCACGCGTACATAG
9396379 TCCATCCATTCAAGATTTAGGTATGCCACACTATAAATATCACAAGTGAATATATCCATAAACAA
66 TCCATCCATTCAAGATTTAGGTATGCCACACTATAAATATCACAAGTGAATATATCCATAAACAA
9396444 ATTCAGGATCTATTCTGCTTGGGTCCATTCCGATGTAACGTCAGTCCAATTAGCCACATCTATGT
131 ATTCAGGATCTATTCTGCTTGGGTCCATTCCGATGTAACGTCAGTCCAATTAGCCACATCTATGT
9396509 CTCTAACATCTGAGAGTCAATCACTCTGATGCCCAAAATAAGGGATCTCCCCAATTGGACTTGAT
196 CTCTAACATCTGAGAGTCAATCACTCTGATGCCCAAAATAAGGGATCTCCCCAATTGGACTTGAT
9396574 AGACGACATATTAGTCTTTCAATCGGTTTGCTCATTTTCGACTAGACTAAGGACATGTTTAGATT
261 AGACGACATATTAGTCTTTCAATCGGTTTGCTCATTTTCGACTAGACTAAGGACATGTTTAGATT
9396639 CATATACTAATATAAGCTGTCTTTCTATATTATGATCTGACAACGTAATACCGCTTAATATTAAT
326 CATATACTAATATAAGCTGTCTTTCTATATTATGATCTGACAACGTAATACCGCTTAATATTAAT
9396704 TAAACATTAGACAACAGGTGAGCAACATTTGCTTTCATTTTGCTTGGCATGCAAAAATCATGTGA
391 TAAACATTAGACAACAGGTGAGCAACATTTGCTTTCATTTTGCTTGGCATGCAAAAATCATGTGA
9396769 AGACAATATATAAAATATTAACGTAATTCATGAATAGTTTTATTAACCAATTTGTTTGAAAAAAT
456 AGACAATATATAAAATATTAACGTAATTCATGAATAGTTTTATTAACCAATTTGTTTGAAAAAAT
9396834 TACAAGTGTACATTACCCTCATTGAGTAAATTGGGGTTAAAGGTCCAACACGCGCACGCCACCCA
521 TACAAGTGTACATTACCCTCATTGAGTAAATTGGGGTTAAAGGTCCAACACGCGCACGCCACCCA
9396899 ATCCATGTTCATGTTTACACGTAATGCACTTGTTTCTTTTTGAATAAACTTTGCATTCCTTTTAT
586 ATCCATGTTCATGTTTACACGTAATGCACTTGTTTCTTTTTGAATAAACTTTGCATTCCTTTTAT
9396964 CAAAAATATTTTTTTTTGTTTTTCAAGATTTTTTTTAGTTGCAAAAAATCT
651 CAAAAATATTTTTTTTTGTTTTTCAAGATTTTTTTTAGTTGCAAAAAATCT
9397015 GATTCATTATCTATTTGACCTCAGGCTTTTACTTACATCAAAGTGTATGAGTCACGCGTACATAG
1 GATTCATTATCTATTTGACCTCAGGCTTTTACTTACATCAAAGTGTATGAGTCACGCGTACATAG
9397080 TCCATCCATTCAAGATTTAGGTATGCCACACTATAAATATCACAAGTGAATATATCCATAAACAA
66 TCCATCCATTCAAGATTTAGGTATGCCACACTATAAATATCACAAGTGAATATATCCATAAACAA
9397145 ATTCAGGATCTATTCTGCTTGGGTCCATTCCGATGTAACGTCAGTCCAATTAGCCACATCTATGT
131 ATTCAGGATCTATTCTGCTTGGGTCCATTCCGATGTAACGTCAGTCCAATTAGCCACATCTATGT
9397210 CTCTAACATCTGAGAGTCAATCACTCTGATGCCCAAAATAAGGGATCTCCCCAATTGGACTTGAT
196 CTCTAACATCTGAGAGTCAATCACTCTGATGCCCAAAATAAGGGATCTCCCCAATTGGACTTGAT
9397275 AGACGACATATTAGTCTTTCAATCGGTTTGCTCATTTTCGACTAGACTAAGGACATGTTTAGATT
261 AGACGACATATTAGTCTTTCAATCGGTTTGCTCATTTTCGACTAGACTAAGGACATGTTTAGATT
9397340 CATATACTAATATAAGCTGTCTTTCTATATTATGATCTGACAACGTAATACCGCTTAATATTAAT
326 CATATACTAATATAAGCTGTCTTTCTATATTATGATCTGACAACGTAATACCGCTTAATATTAAT
9397405 TAAACATTAGACAACAGGTGAGCAACATTTGCTTTCATTTTGCTTGGCATGCAAAAATCATGTGA
391 TAAACATTAGACAACAGGTGAGCAACATTTGCTTTCATTTTGCTTGGCATGCAAAAATCATGTGA
9397470 AGACAATATATAAAATATTAACGTAATTCATGAATAGTTTTATTAACCAATTTGTTTGAAAAAAT
456 AGACAATATATAAAATATTAACGTAATTCATGAATAGTTTTATTAACCAATTTGTTTGAAAAAAT
9397535 TACAAGTGTACATTACCCTCATTGAGTAAATTGGGGTTAAAGGTCCAACACGCGCACGCCACCCA
521 TACAAGTGTACATTACCCTCATTGAGTAAATTGGGGTTAAAGGTCCAACACGCGCACGCCACCCA
9397600 ATCCATGTTCATGTTTACACGTAATGCACTTGTTTCTTTTTGAATAAACTTTGCATTCCTTTTAT
586 ATCCATGTTCATGTTTACACGTAATGCACTTGTTTCTTTTTGAATAAACTTTGCATTCCTTTTAT
9397665 CAAAAATATTTTTTTTTGTTTTTCAAGATTTTTTTTAGTTGCAAAAAATCT
651 CAAAAATATTTTTTTTTGTTTTTCAAGATTTTTTTTAGTTGCAAAAAATCT
9397716 TCTAGCTGTT
Statistics
Matches: 701, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
701 701 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (701 bp):
GATTCATTATCTATTTGACCTCAGGCTTTTACTTACATCAAAGTGTATGAGTCACGCGTACATAG
TCCATCCATTCAAGATTTAGGTATGCCACACTATAAATATCACAAGTGAATATATCCATAAACAA
ATTCAGGATCTATTCTGCTTGGGTCCATTCCGATGTAACGTCAGTCCAATTAGCCACATCTATGT
CTCTAACATCTGAGAGTCAATCACTCTGATGCCCAAAATAAGGGATCTCCCCAATTGGACTTGAT
AGACGACATATTAGTCTTTCAATCGGTTTGCTCATTTTCGACTAGACTAAGGACATGTTTAGATT
CATATACTAATATAAGCTGTCTTTCTATATTATGATCTGACAACGTAATACCGCTTAATATTAAT
TAAACATTAGACAACAGGTGAGCAACATTTGCTTTCATTTTGCTTGGCATGCAAAAATCATGTGA
AGACAATATATAAAATATTAACGTAATTCATGAATAGTTTTATTAACCAATTTGTTTGAAAAAAT
TACAAGTGTACATTACCCTCATTGAGTAAATTGGGGTTAAAGGTCCAACACGCGCACGCCACCCA
ATCCATGTTCATGTTTACACGTAATGCACTTGTTTCTTTTTGAATAAACTTTGCATTCCTTTTAT
CAAAAATATTTTTTTTTGTTTTTCAAGATTTTTTTTAGTTGCAAAAAATCT
Found at i:9400915 original size:14 final size:14
Alignment explanation
Indices: 9400893--9400922 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9400883 TATTTTTTAA
*
9400893 GACTTCTTAAGAGG
1 GACTGCTTAAGAGG
9400907 GACTGCTTAAGAGG
1 GACTGCTTAAGAGG
9400921 GA
1 GA
9400923 GCTAATCTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.13, G:0.33, T:0.23
Consensus pattern (14 bp):
GACTGCTTAAGAGG
Found at i:9414654 original size:37 final size:36
Alignment explanation
Indices: 9414613--9414683 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
9414603 TATTTGATTT
*
9414613 TTTGTTTTAAGCGGAACAACTAAACAAAAGATGATAG
1 TTTGTTTTAA-CGGAACAACTAAACAAAAAATGATAG
* * * *
9414650 TTTGTTTTGATGGAACAATTAAGCAAAAAATGAT
1 TTTGTTTTAACGGAACAACTAAACAAAAAATGAT
9414684 TATTTTGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 20 0.69
37 9 0.31
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.31
Consensus pattern (36 bp):
TTTGTTTTAACGGAACAACTAAACAAAAAATGATAG
Found at i:9414761 original size:17 final size:18
Alignment explanation
Indices: 9414736--9414774 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9414726 AATTTTAATT
*
9414736 TTAACTTAATATTT-AAA
1 TTAACTTAAGATTTAAAA
*
9414753 TTAATTTAAGATTTAAAA
1 TTAACTTAAGATTTAAAA
9414771 TTAA
1 TTAA
9414775 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAACTTAAGATTTAAAA
Found at i:9427853 original size:107 final size:107
Alignment explanation
Indices: 9427734--9427947 Score: 412
Period size: 107 Copynumber: 2.0 Consensus size: 107
9427724 ATTAAAGTTA
9427734 ACTGCACTTAATTTTTTTCAGTTAAAGCCACCACATTTCACAACCACGATATGACATGTGACAAA
1 ACTGCACTTAATTTTTTTCAGTTAAAGCCACCACATTTCACAACCACGATATGACATGTGACAAA
9427799 AAAATTGATAATC-AATAAAAATTATAAAAAAATATTAAAAAT
66 AAAATTGATAATCAAAT-AAAATTATAAAAAAATATTAAAAAT
9427841 ACTGCACTTAATTTTTTTCAGTTAAAGCCACCACATTTCACAACCACGATATGACATGTGACAAA
1 ACTGCACTTAATTTTTTTCAGTTAAAGCCACCACATTTCACAACCACGATATGACATGTGACAAA
9427906 AAAATTGATAATCAAATAAAATTATAAAAAAATATTAAAAAT
66 AAAATTGATAATCAAATAAAATTATAAAAAAATATTAAAAAT
9427948 TAGAAAAAAA
Statistics
Matches: 106, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
107 103 0.97
108 3 0.03
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (107 bp):
ACTGCACTTAATTTTTTTCAGTTAAAGCCACCACATTTCACAACCACGATATGACATGTGACAAA
AAAATTGATAATCAAATAAAATTATAAAAAAATATTAAAAAT
Found at i:9427948 original size:20 final size:21
Alignment explanation
Indices: 9427921--9427978 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
9427911 TGATAATCAA
9427921 ATAAAATTATAAAAAAATATT
1 ATAAAATTATAAAAAAATATT
*
9427942 A-AAAATTAGAAAAAAA-ATT
1 ATAAAATTATAAAAAAATATT
*
9427961 ATAAAATCATAAAAAAAT
1 ATAAAATTATAAAAAAAT
9427979 TATAAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.12
20 27 0.84
21 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
ATAAAATTATAAAAAAATATT
Found at i:9427966 original size:11 final size:11
Alignment explanation
Indices: 9427923--9427984 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
9427913 ATAATCAAAT
9427923 AAAATTATAAA
1 AAAATTATAAA
*
9427934 AAAA-TAT-TA
1 AAAATTATAAA
*
9427943 AAAATTAGAAAA
1 AAAATTA-TAAA
9427955 AAAATTAT---
1 AAAATTATAAA
*
9427963 AAAATCATAAA
1 AAAATTATAAA
9427974 AAAATTATAAA
1 AAAATTATAAA
9427985 TATATAGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
8 7 0.18
9 5 0.13
10 5 0.13
11 14 0.36
12 8 0.21
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:9427979 original size:19 final size:19
Alignment explanation
Indices: 9427921--9427984 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
9427911 TGATAATCAA
9427921 ATAAAATTATAAAAAAA-T
1 ATAAAATTATAAAAAAATT
*
9427939 ATTAAAAATTAGAAAAAAAATT
1 A-T-AAAATTA-TAAAAAAATT
*
9427961 ATAAAATCATAAAAAAATT
1 ATAAAATTATAAAAAAATT
9427980 ATAAA
1 ATAAA
9427985 TATATAGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.38
20 13 0.33
21 8 0.21
22 2 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAAATTATAAAAAAATT
Found at i:9428003 original size:27 final size:26
Alignment explanation
Indices: 9427956--9428011 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
9427946 ATTAGAAAAA
*
9427956 AAATTATAAAATCATAAAAAAATTAT
1 AAATTATAAAATCATAAAAAAACTAT
*
9427982 AAATATATAGAAAT-ATAGAAAAACTAT
1 AAAT-TATA-AAATCATAAAAAAACTAT
9428009 AAA
1 AAA
9428012 ATTTTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 18 0.69
28 4 0.15
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (26 bp):
AAATTATAAAATCATAAAAAAACTAT
Found at i:9428290 original size:22 final size:21
Alignment explanation
Indices: 9428248--9428292 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9428238 TTAAATGGTC
9428248 TTTTTAATGCATTTTATAATT
1 TTTTTAATGCATTTTATAATT
* *
9428269 TTTTTTATG-ATTCTTATAAAT
1 TTTTTAATGCATT-TTATAATT
9428290 TTT
1 TTT
9428293 CACAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTTAATGCATTTTATAATT
Found at i:9428962 original size:18 final size:19
Alignment explanation
Indices: 9428927--9428967 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9428917 TTTGAGATGG
*
9428927 TTATAGCAAAAATATTATA
1 TTATAACAAAAATATTATA
*
9428946 TTATAACAAAAA-CTTATA
1 TTATAACAAAAATATTATA
9428964 TTAT
1 TTAT
9428968 TTAAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (19 bp):
TTATAACAAAAATATTATA
Found at i:9435769 original size:22 final size:22
Alignment explanation
Indices: 9435741--9435795 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
9435731 ATAATATAGA
9435741 TTTAATAAATGCAGGAAAATCT
1 TTTAATAAATGCAGGAAAATCT
9435763 TTTAATAAATGCAGGAAAATCT
1 TTTAATAAATGCAGGAAAATCT
9435785 TTTAATAAATG
1 TTTAATAAATG
9435796 AAAAGAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (22 bp):
TTTAATAAATGCAGGAAAATCT
Found at i:9458694 original size:16 final size:18
Alignment explanation
Indices: 9458659--9458696 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9458649 ATCTTTATTT
9458659 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
9458677 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
9458693 AAAT
1 AAAT
9458697 TCATATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:9461444 original size:21 final size:21
Alignment explanation
Indices: 9461419--9461460 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9461409 AGTATGCCAG
9461419 GGCTGATCTAGTTGCTTATGC
1 GGCTGATCTAGTTGCTTATGC
9461440 GGCTGATCTAGTTGCTTATGC
1 GGCTGATCTAGTTGCTTATGC
9461461 TTTAAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.38
Consensus pattern (21 bp):
GGCTGATCTAGTTGCTTATGC
Found at i:9469620 original size:25 final size:24
Alignment explanation
Indices: 9469592--9469648 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
9469582 GAAAGAAATA
*
9469592 AAAAAACAAAAAGAAAATCTATTCT
1 AAAAAA-AAAAAGAAAATCTAATCT
*
9469617 AAAAAGAAAAGAGAAAATCTAATCT
1 AAAAA-AAAAAAGAAAATCTAATCT
9469642 AAAAAAA
1 AAAAAAA
9469649 GTGAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 26 0.90
26 1 0.03
ACGTcount: A:0.68, C:0.09, G:0.07, T:0.16
Consensus pattern (24 bp):
AAAAAAAAAAAGAAAATCTAATCT
Found at i:9472033 original size:20 final size:20
Alignment explanation
Indices: 9472008--9472047 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9471998 CGTAAAATGA
*
9472008 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
9472028 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9472048 GGGAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9472037 original size:34 final size:35
Alignment explanation
Indices: 9471993--9472059 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9471983 CAGTAAAATA
*
9471993 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
9472027 TTTTCTGTAAAATGATTTACTGGGAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
9472060 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Done.