Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 85 of 103
Found at i:31454597 original size:399 final size:395
Alignment explanation
Indices: 31453860--31454812 Score: 1068
Period size: 399 Copynumber: 2.4 Consensus size: 395
31453850 CAAGGGGAAC
* * * *
31453860 GCACCATATAGTAAGACTTCGAATTCACATATTGGCACCATTATACCCTAATGTATAATAGGAAT
1 GCACCATATACTAAGATTTCAAATTCAC--ATTGGCACCATTATACCTTAATGTATAATAGGAAT
* ** * * * *
31453925 GCCACATTCCCGTACCTTAAAAGTTTATTATTTCCATAAGTACCATTGTGCCATTATTGCATAAT
64 GCCACATGCCCACACCTTAAAAGTTTATTATTTCCATAAGCACCATTATGCCATTATTACACAAT
* * * * *
31453990 AGGAATGCCAGGTCAAGTACTTTAAACATTTAATTTGCACCATTTTACCTTCAATCAAATAATAG
129 AGAAATGCCACGTCAAGTACTTTAAACATCTAATTTGCACCA-TTCACCTTCAATCAAATAATAA
* * * *
31454055 GAACGCAACATATGCTCAGATTTCAAATTCAAATATTGACACCATTATACCGTAATGTATAATAG
193 GAACGCAACATATACTAAGATTTCAAATTCAAATATAGACACCATTATACCGTAATGTATAATAA
* * * *
31454120 GAATGCCACATATCAAAACCTTAAAGTTTTTTTATGTCTGTGAGCACCATTGTGCCATAATTACA
258 GAATGCCACATACCAAAACCTTAAAGTTTTATTATGTCTATAAGCACCATTGTGCCATAATTACA
** *
31454185 CAATAGGAATGCCACATCAAGCACTTTAAATATCGAATTTGAATCATTATACCTTCGATCAAATA
323 CAATAGGAATGCCACATCAAGCACTTTAAATATCGAATTTGAATCACCACACCTTCGATCAAATA
31454250 ATATA-AAT
388 ATA-AGAAT
*
31454258 GCACCATATACTAAGATTTAAAATTCACGGATTGGCACCATTATACCTTAATGTATAATAGGAAT
1 GCACCATATACTAAGATTTCAAATTCAC--ATTGGCACCATTATACCTTAATGTATAATAGGAAT
* * * * *** *
31454323 GCCACATGCTCACACACTT-GATGTTTTTTTATTTTTGTAAGCACCATTATGCCGTTATTACACA
64 GCCACATGCCCACAC-CTTAAAAG-TTTATTATTTCCATAAGCACCATTATGCCATTATTACACA
* * *
31454387 ATAGAAATGCTACGTCAAGTACTTTAAATATCTAATTTGCACC-TTCACTTCTTCGATCAAATAA
127 ATAGAAATGCCACGTCAAGTACTTTAAACATCTAATTTGCACCATTCAC--CTTCAATCAAATAA
* * * * * *
31454451 TAAGAATGCATCATATACTAAGATTTCATATTCACATATAGGCACCATTATACCTTAATGTATAA
190 TAAGAACGCAACATATACTAAGATTTCAAATTCAAATATAGACACCATTATACCGTAATGTATAA
* *** * * * *
31454516 TAAGAATGCCACATGCCCGCACCTTAAGGTTTTATTATTTTTATAAGCACCATTGTGCCATTATT
255 TAAGAATGCCACATACCAAAACCTTAAAGTTTTATTATGTCTATAAGCACCATTGTGCCATAATT
* * * * * *
31454581 ACACAATAGGAATGCCACGTCAAGTATTTTAAATATCTAATTTGCATCACCACACCTTCGATCGA
320 ACACAATAGGAATGCCACATCAAGCACTTTAAATATCGAATTTGAATCACCACACCTTCGATCAA
*
31454646 TTAATAAGAAT
385 ATAATAAGAAT
* * * *
31454657 GCACCATATGCTAAGATTTCATATTCACATCTAGGCACCATTTTACCTTAATGTATAATAAGAAT
1 GCACCATATACTAAGATTTCAAATTCACAT-T-GGCACCATTATACCTTAATGTATAATAGGAAT
** * * * * * * **
31454722 GCCACATTTCCACACGTT-AAAGTTTCATTTTTTCTATAAGCACCATCATTCCAATATTACATGA
64 GCCACATGCCCACACCTTAAAAGTTT-ATTATTTCCATAAGCACCATTATGCCATTATTACACAA
* * *
31454786 TAGGAATGCCATGTCAAGTACCTTAAA
128 TAGAAATGCCACGTCAAGTACTTTAAA
31454813 TAGGAATGCA
Statistics
Matches: 460, Mismatches: 87, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
397 9 0.02
398 128 0.28
399 323 0.70
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (395 bp):
GCACCATATACTAAGATTTCAAATTCACATTGGCACCATTATACCTTAATGTATAATAGGAATGC
CACATGCCCACACCTTAAAAGTTTATTATTTCCATAAGCACCATTATGCCATTATTACACAATAG
AAATGCCACGTCAAGTACTTTAAACATCTAATTTGCACCATTCACCTTCAATCAAATAATAAGAA
CGCAACATATACTAAGATTTCAAATTCAAATATAGACACCATTATACCGTAATGTATAATAAGAA
TGCCACATACCAAAACCTTAAAGTTTTATTATGTCTATAAGCACCATTGTGCCATAATTACACAA
TAGGAATGCCACATCAAGCACTTTAAATATCGAATTTGAATCACCACACCTTCGATCAAATAATA
AGAAT
Found at i:31456880 original size:199 final size:199
Alignment explanation
Indices: 31456529--31457481 Score: 1072
Period size: 199 Copynumber: 4.8 Consensus size: 199
31456519 AAGGAGAACG
* * * * * * *
31456529 CACCATAGAGTAAGACTTCGAATTCACATATTGGCATCATTATA-CTTAATATATAATAGTAATG
1 CACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATG
* * * * * *
31456593 CCATATTCCCGCACCTTAAAGGTTTATTATTTCCATAAGCACCATTGTGCCATTATTGCACAATA
66 CCACATGCCCACACCTTAAA-GTTTTTTATTTCTATAAGCACCATTGTGCCATTATTACACAATA
* * ** *
31456658 GGAATGTCAGGTCAAGTACTTTAAATATCTAATTTGCACCATTTTC-CCTTCGATCAAGTAATAG
130 GGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTCACACCTTCGATCAAATAATAG
**
31456722 GAACG
195 GAATA
* * * * *
31456727 CACCATATGCTTAGATTTCAAATTCAAATATTGACACCATTATACCATAATGTATAATAGGAATG
1 CACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATG
* * * * * *
31456792 CCACATACCCAAACCTTAAAGTTTCTTTATGTCTGTGAGCACCATTGTGCCATAATTACACAATA
66 CCACATGCCCACACCTTAAAGTTT-TTTATTTCTATAAGCACCATTGTGCCATTATTACACAATA
* * * *
31456857 GGAATGCCACGTCAAGCACTTTAAATATCAAATTTGCACCATT-ATACCTTTGATCAAATAATAG
130 GGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTCACACCTTCGATCAAATAATAG
*
31456921 AAATA
195 GAATA
* ** *
31456926 CACCATATACTAAGATTTAAAATTCACGGATTGGTACCATTATACCTTAATGTATAATAGGAATG
1 CACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATG
* * * * * *
31456991 CCACATGCTCACACACTTAATGTTTTTTTGTTTTTGTAAGCACCATTGTGCCGTTATTACACAAT
66 CCACATGCCCACAC-CTTAAAG-TTTTTTATTTCTATAAGCACCATTGTGCCATTATTACACAAT
* *
31457056 AGGAATGCTACGTCAAGTACTTTAAATATCTAATTTGCACC-TTCACGCCTTCGATCAAATAATA
129 AGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTCACACCTTCGATCAAATAATA
*
31457120 GGAATG
194 GGAATA
* * * * *
31457126 CATCATATACTAAGATTTCATATTCACATATAGGCACCGTTATACCTTAATGTATAATAAGAATG
1 CACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATG
* * * * * *
31457191 CCACATGCCCGCACCTTAAGGTTTTATTATTTTTATAAACACCATTGTGCCATTATTATATAATA
66 CCACATGCCCACACCTTAAAGTTTT-TTATTTCTATAAGCACCATTGTGCCATTATTACACAATA
* * * * * * *
31457256 GGAATGCCACGTCAAGTATTTTAAATATCTAATTTGCATCA-CCACACCTTCAATCGATTAATAA
130 GGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTCACACCTTCGATCAAATAATAG
31457320 GAATA
195 GAATA
* * * *
31457325 CACCATATGCTAAGATTTCATATTAACAT-TTAGGCACCATTATACCTTAATGTATAATAAGAAT
1 CACCATATACTAAGATTTCAAATTCACATATT-GGCACCATTATACCTTAATGTATAATAGGAAT
** ** * * **
31457389 GCCACATTTCCACATGTTAAAGTTTCATTATTTCTATAAGCACCATTGTGCCAATATTACATGAT
65 GCCACATGCCCACACCTTAAAGTTT-TTTATTTCTATAAGCACCATTGTGCCATTATTACACAAT
* *
31457454 AGGAATGCCATGTCAAGTACCTTAAATA
129 AGGAATGCCACGTCAAGTACTTTAAATA
31457482 GGAATGCACC
Statistics
Matches: 636, Mismatches: 109, Indels: 19
0.83 0.14 0.02
Matches are distributed among these distances:
198 44 0.07
199 423 0.67
200 166 0.26
201 3 0.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (199 bp):
CACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATG
CCACATGCCCACACCTTAAAGTTTTTTATTTCTATAAGCACCATTGTGCCATTATTACACAATAG
GAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTCACACCTTCGATCAAATAATAGG
AATA
Found at i:31457366 original size:399 final size:397
Alignment explanation
Indices: 31456558--31457481 Score: 1076
Period size: 399 Copynumber: 2.3 Consensus size: 397
31456548 GAATTCACAT
* * * * *
31456558 ATTGGCATCATTATA-CTTAATATATAAT-AGTAATGCCATAT-TCCCGCACCTTAAAGGTTT-A
1 ATTGGCACCATTATACCTTAATGTATAATAAG-AATGCCACATCT-CCACATCTTAAA-GTTTCA
* * *
31456619 TTATTTCCATAAGCACCATTGTGCCATTATTGCACAATAGGAATG-TCAGGTCAAGTACTTTAAA
63 TTATTTCTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCT-ACGTCAAGTACTTTAAA
** * * *
31456683 TATCTAATTTGCACCATTTTCCCTTCGATCAAGTAATAGGAACGCACCATATGCTTAGATTTCAA
127 TATCTAATTTGCACCATTCACCCTTCGATCAAATAATAGGAACGCACCATATACTAAGATTTCAA
* *
31456748 ATTCAAATATTGACACCATTATACCATAATGTATAATAGGAATGCCACATACCCAAACCTTAAAG
192 ATTCAAATATAGACACCATTATACCATAATGTATAATAAGAATGCCACATACCCAAACCTTAAAG
* * *
31456813 TTTCTTTATGTCTGTGAGCACCATTGTGCCATAATTACACAATAGGAATGCCACGTCAAGCACTT
257 TTTCTTTATGTCTATAAACACCATTGTGCCATAATTACACAATAGGAATGCCACGTCAAGCACTT
** * **
31456878 TAAATATCAAATTTGCACCATTATACCTTTGATCAAATAATAGAAATACACCATATACTAAGATT
322 TAAATATCAAATTTGCACCACCACACCTTCAATCAAATAATAGAAATACACCATATACTAAGATT
*
31456943 TAAAATTCACGG
387 TAAAATTAAC-G
* * * **
31456955 ATTGGTACCATTATACCTTAATGTATAATAGGAATGCCACATGCTCACACA-CTTAATGTTTTTT
1 ATTGGCACCATTATACCTTAATGTATAATAAGAATGCCACAT-CTC-CACATCTTAAAGTTTCAT
* * * *
31457019 TGTTTTTGTAAGCACCATTGTGCCGTTATTACACAATAGGAATGCTACGTCAAGTACTTTAAATA
64 TATTTCTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCTACGTCAAGTACTTTAAATA
* * *
31457084 TCTAATTTGCACC-TTCACGCCTTCGATCAAATAATAGGAATGCATCATATACTAAGATTTCATA
129 TCTAATTTGCACCATTCAC-CCTTCGATCAAATAATAGGAACGCACCATATACTAAGATTTCAAA
* * * * * ** *
31457148 TTCACATATAGGCACCGTTATACCTTAATGTATAATAAGAATGCCACATGCCCGCACCTTAAGGT
193 TTCAAATATAGACACCATTATACCATAATGTATAATAAGAATGCCACATACCCAAACCTTAAAGT
* * * * * * *
31457213 TT-TATTATTTTTATAAACACCATTGTGCCATTATTATATAATAGGAATGCCACGTCAAGTATTT
258 TTCT-TTATGTCTATAAACACCATTGTGCCATAATTACACAATAGGAATGCCACGTCAAGCACTT
* * * * *
31457277 TAAATATCTAATTTGCATCACCACACCTTCAATCGATTAATA-AGAATACACCATATGCTAAGAT
322 TAAATATCAAATTTGCACCACCACACCTTCAATCAAATAATAGA-AATACACCATATACTAAGAT
* *
31457341 TTCATATTAAC-
386 TTAAAATTAACG
* *
31457352 ATTTAGGCACCATTATACCTTAATGTATAATAAGAATGCCACATTTCCACATGTTAAAGTTTCAT
1 A-TT-GGCACCATTATACCTTAATGTATAATAAGAATGCCACATCTCCACATCTTAAAGTTTCAT
* ** * * *
31457417 TATTTCTATAAGCACCATTGTGCCAATATTACATGATAGGAATGCCATGTCAAGTACCTTAAATA
64 TATTTCTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCTACGTCAAGTACTTTAAATA
31457482 GGAATGCACC
Statistics
Matches: 441, Mismatches: 73, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
397 18 0.04
398 98 0.22
399 320 0.73
400 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (397 bp):
ATTGGCACCATTATACCTTAATGTATAATAAGAATGCCACATCTCCACATCTTAAAGTTTCATTA
TTTCTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCTACGTCAAGTACTTTAAATATC
TAATTTGCACCATTCACCCTTCGATCAAATAATAGGAACGCACCATATACTAAGATTTCAAATTC
AAATATAGACACCATTATACCATAATGTATAATAAGAATGCCACATACCCAAACCTTAAAGTTTC
TTTATGTCTATAAACACCATTGTGCCATAATTACACAATAGGAATGCCACGTCAAGCACTTTAAA
TATCAAATTTGCACCACCACACCTTCAATCAAATAATAGAAATACACCATATACTAAGATTTAAA
ATTAACG
Found at i:31457602 original size:163 final size:162
Alignment explanation
Indices: 31457315--31457610 Score: 371
Period size: 163 Copynumber: 1.8 Consensus size: 162
31457305 TCAATCGATT
* * *
31457315 AATAAGAATACACCATATGCTAAGATTTCATATTAACATTTAGGCACCATTATACCTTAATGTAT
1 AATAAGAATACACCATATGCTAAAATTTCAAATTAACATATAGGCACCATTATACCTTAATGTAT
* * *** * *
31457380 AATAAGAATGCCACATTTCCACATGTTAAAGTTTCATTATTTCTATAAGCACCATTGTGCCAATA
66 AATAAGAATGCCACAATGCCACACCATAAAATTT-ATTATTTCTATAAACACCATTGTGCCAATA
31457445 TTACATGATAGGAATGCCATGTCAAGTACCTTA
130 TTACATGATAGGAATGCCATGTCAAGTACCTTA
* * * * *
31457478 AATAGGAATGCACCGTATGCTAAAATTTCAAATTCACATATCGGCACCATTATACCTTAATGTAT
1 AATAAGAATACACCATATGCTAAAATTTCAAATTAACATATAGGCACCATTATACCTTAATGTAT
* * * *
31457543 AATAGGAATGGCA-AATGCACACACCATAAAATATT-TTATTTCTATAAACAACTATTGTGCCAT
66 AATAAGAATGCCACAATGC-CACACCATAAAAT-TTATTATTTCTATAAAC-ACCATTGTGCCAA
31457606 TATTA
128 TATTA
31457611 AACAATGGAT
Statistics
Matches: 111, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
162 16 0.14
163 93 0.84
164 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (162 bp):
AATAAGAATACACCATATGCTAAAATTTCAAATTAACATATAGGCACCATTATACCTTAATGTAT
AATAAGAATGCCACAATGCCACACCATAAAATTTATTATTTCTATAAACACCATTGTGCCAATAT
TACATGATAGGAATGCCATGTCAAGTACCTTA
Found at i:31457644 original size:163 final size:162
Alignment explanation
Indices: 31457315--31457644 Score: 351
Period size: 163 Copynumber: 2.0 Consensus size: 162
31457305 TCAATCGATT
* * *
31457315 AATAAGAATACACCATATGCTAAGATTTCATATTAACATTTAGGCACCATTATACCTTAATGTAT
1 AATAAGAATACACCATATGCTAAAATTTCAAATTAACATATAGGCACCATTATACCTTAATGTAT
* * *** * *
31457380 AATAAGAATGCCACATTTCCACATGTTAAAGTTTCATTATTTCTATAAGCACCATTGTGCCAATA
66 AATAAGAATGCCACAATGCCACACCATAAAATTT-ATTATTTCTATAAACACCATTGTGCCAATA
* ** *
31457445 TTACATGATAGGAATGCCATGTCAAGTACCTTA
130 TTAAACAATAGGAATGCCATGCCAAGTACCTTA
* * * * *
31457478 AATAGGAATGCACCGTATGCTAAAATTTCAAATTCACATATCGGCACCATTATACCTTAATGTAT
1 AATAAGAATACACCATATGCTAAAATTTCAAATTAACATATAGGCACCATTATACCTTAATGTAT
* * * *
31457543 AATAGGAATGGCA-AATGCACACACCATAAAATATT-TTATTTCTATAAACAACTATTGTGCCAT
66 AATAAGAATGCCACAATGC-CACACCATAAAAT-TTATTATTTCTATAAAC-ACCATTGTGCCAA
** * *
31457606 TATTAAACAAT-GGATATGTTATGCCATGTACTTTA
128 TATTAAACAATAGGA-ATGCCATGCCAAGTACCTTA
31457641 AATA
1 AATA
31457645 TCTAATTTTC
Statistics
Matches: 136, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
162 19 0.14
163 115 0.85
164 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (162 bp):
AATAAGAATACACCATATGCTAAAATTTCAAATTAACATATAGGCACCATTATACCTTAATGTAT
AATAAGAATGCCACAATGCCACACCATAAAATTTATTATTTCTATAAACACCATTGTGCCAATAT
TAAACAATAGGAATGCCATGCCAAGTACCTTA
Found at i:31458599 original size:162 final size:163
Alignment explanation
Indices: 31458326--31458641 Score: 589
Period size: 162 Copynumber: 1.9 Consensus size: 163
31458316 AAAAGTTAGA
*
31458326 TTTCAAGGTTATTTAAGAAAGTGCTAATCAAACAATCTAAATAAAAGCATCATTTTATTCAACAG
1 TTTCAAGGTTATTTAAGAAAGTGCTAATCAAACAATCTAAATAAAAGCATCATTTTATTCAACAA
31458391 CACTAGGAGACTAGTAACAAACTAAGAATATACCGGAGTGAATTTTGTTTTTAACAAACAAGAAA
66 CACTAGGAGACTAGTAACAAACTAAGAATATACCGGAGTGAATTTTGTTTTTAACAAACAAGAAA
*
31458456 GTGTTCCATTAAGCTCTC-TCTTTTTTGTTTCT
131 GTGTTCCATAAAGCTCTCTTCTTTTTTGTTTCT
*
31458488 TTTCAGGGTTATTTAAGAAAGTGCTAATCAAACAATCTAAATAAAAGCATCATTTTATTCAACAA
1 TTTCAAGGTTATTTAAGAAAGTGCTAATCAAACAATCTAAATAAAAGCATCATTTTATTCAACAA
*
31458553 CACTAGGAGACTAGTAACAAACTAAGAATATACCGTAGTGAATTTTGTTTTTAACAAACAAGAAA
66 CACTAGGAGACTAGTAACAAACTAAGAATATACCGGAGTGAATTTTGTTTTTAACAAACAAGAAA
31458618 GTGTTCCATAAAGCTCTCTTCTTT
131 GTGTTCCATAAAGCTCTCTTCTTT
31458642 GTTTCTGATG
Statistics
Matches: 149, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
162 144 0.97
163 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (163 bp):
TTTCAAGGTTATTTAAGAAAGTGCTAATCAAACAATCTAAATAAAAGCATCATTTTATTCAACAA
CACTAGGAGACTAGTAACAAACTAAGAATATACCGGAGTGAATTTTGTTTTTAACAAACAAGAAA
GTGTTCCATAAAGCTCTCTTCTTTTTTGTTTCT
Found at i:31458930 original size:32 final size:32
Alignment explanation
Indices: 31458889--31458954 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
31458879 CAGAAAACCA
31458889 AAATCAATTAGATCAAATAATCATTAGGGAAG
1 AAATCAATTAGATCAAATAATCATTAGGGAAG
31458921 AAATCAATTAGATCAAATAATCATTAGGGAAG
1 AAATCAATTAGATCAAATAATCATTAGGGAAG
31458953 AA
1 AA
31458955 GACTAACTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (32 bp):
AAATCAATTAGATCAAATAATCATTAGGGAAG
Found at i:31458946 original size:16 final size:17
Alignment explanation
Indices: 31458890--31458947 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 17
31458880 AGAAAACCAA
31458890 AATCAATTAGATCAAAT
1 AATCAATTAGATCAAAT
**
31458907 AATC-ATTAG-GGAAGA-
1 AATCAATTAGATCAA-AT
31458922 AATCAATTAGATCAAAT
1 AATCAATTAGATCAAAT
31458939 AATC-ATTAG
1 AATCAATTAG
31458948 GGAAGAAGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
15 6 0.18
16 17 0.52
17 10 0.30
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (17 bp):
AATCAATTAGATCAAAT
Found at i:31459765 original size:199 final size:198
Alignment explanation
Indices: 31459396--31460334 Score: 989
Period size: 199 Copynumber: 4.7 Consensus size: 198
31459386 CATCATAGAG
* * * * ** * * *
31459396 TAAGACTTCGAATTCACTTATTGGCATTATTATACCTTAATATATAAT-AGTAATACCACATTCC
1 TAAGATTTCAAATTCACATATTGACACCATTATACCTTAATGTATAATAAG-AATGCCACATGCC
* * ** *
31459460 CGCACCTTAAAGGTTT-ATTATTTCCATAAGCACCATTGTGCCATTATTACACAATAGAAATGCC
65 CACACCTT-AA-GTTTCTTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCC
* * * *
31459524 AGGTCAAGTACTTTAAATATTTAATTTGCACCATTTTACCTTCGATCAAGTAATAGGAATGCACC
128 ACGTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCACC
*
31459589 ATATGC
193 ATATAC
* * * * *
31459595 TCAGATTTCAAATTCAAATATTGACACCATTATACCGTAATGTATAATAGGAATGCCACATACCC
1 TAAGATTTCAAATTCACATATTGACACCATTATACCTTAATGTATAATAAGAATGCCACATGCCC
* * * * *
31459660 AAACCTTAAAGTTTCTTTATGTTTGTGAGCACCATTGTGCCATAATTACACAATAGGAATGCCAC
66 ACACCTT-AAGTTTCTTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCCAC
* * * *
31459725 GTCAAGCACTTTAAAGATCAAATTTGCACCATTATACCTTCGATCAAATAATAGAAATGCACCAT
130 GTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCACCAT
31459790 ATAC
195 ATAC
* * * *
31459794 TAAGATTTAAAATTCACGA-ATTGGCACCATTATACCTTAATGTATAATAGGAATGCCACATGCT
1 TAAGATTTCAAATTCAC-ATATTGACACCATTATACCTTAATGTATAATAAGAATGCCACATGCC
* * * * * * **
31459858 CACACACTTGATTTTTTTTGTTTTTGTAAGCACCATTGTGCCGTTATTACACAATAGGAATGTTA
65 CACAC-CTTAAGTTTCTTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCCA
*
31459923 CGTCAAGTACTTTAAATATCTAATTTGCACC-TT-TACTTCTTCGATCAAATAATAGGAATGCAT
129 CGTCAAGTACTTTAAATATCTAATTTGCACCATTATAC--CTTCGATCAAATAATAGGAATGCAC
*
31459986 CATATAT
192 CATATAC
* * * * * *
31459993 TAAGATTTCATACTCACATA-TAAGCACCATTATACCTTAATATCTAACAAGAATGCCACATGCC
1 TAAGATTTCAAATTCACATATTGA-CACCATTATACCTTAATGTATAATAAGAATGCCACATGCC
* * *
31460057 CGCACCTTAAG-GT-TTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGTCAC
65 CACACCTTAAGTTTCTTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCCAC
* * ** * * * * *
31460120 GTCAAGTATTTTAAATATCTAATTTGCATCACCACACCTTCGATCGATTAATAAGAATACACCAT
130 GTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCACCAT
*
31460185 ATGC
195 ATAC
* * * * **
31460189 TAAGATTTCATATTCACAT-TTAGGCACCGTTATATCTTAATGTATAATAAGAATGCCACATTTC
1 TAAGATTTCAAATTCACATATT-GACACCATTATACCTTAATGTATAATAAGAATGCCACATGCC
* * * * * *
31460253 CACACGTTAAAGTTTCATTATTTCTAAAAGCACCATCGTG-CATTATTACACGATAGGAATGCCA
65 CACACCTT-AAGTTTCTTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCCA
* *
31460317 TGTCAAGTACCTTAAATA
129 CGTCAAGTACTTTAAATA
31460335 GGAATGCACC
Statistics
Matches: 617, Mismatches: 108, Indels: 31
0.82 0.14 0.04
Matches are distributed among these distances:
196 157 0.25
197 7 0.01
198 52 0.08
199 396 0.64
200 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (198 bp):
TAAGATTTCAAATTCACATATTGACACCATTATACCTTAATGTATAATAAGAATGCCACATGCCC
ACACCTTAAGTTTCTTTATTTTTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCCACG
TCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCACCATA
TAC
Found at i:31462607 original size:200 final size:199
Alignment explanation
Indices: 31462049--31463616 Score: 1538
Period size: 200 Copynumber: 7.9 Consensus size: 199
31462039 TAAGGGGAAC
* * * * *
31462049 GCACCATATAGTAAGACTTCGAATTCACATATTGGCACCATTATACCTCAATGTATAATAGGAAC
1 GCACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAAT
* ** * * * *
31462114 GCCACATTCCTGCACCTTAAAGGTTTTTCTATTTCTATAAGCACTATTGTGCCATTATTGCACAA
66 GCCACATGCCCACACCTTAAA-GTTTTTATGTTTCTATAAGCACCATTGTGCCATTATTACACAA
* * * * * * * *
31462179 TGGGAACGCTAGGTCAAGTACTTTAAATATCTAATTTGCACCATTTTATCTTTGATCAAGTAATA
130 TAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATA
*
31462244 GAAAC
195 GAAAT
* * * * * *
31462249 GCACCATATGCTCAGATTTCAAATTCATATATTGACATCATTATACCGTAATGTATAATAGGAAT
1 GCACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAAT
* * * * *
31462314 GCCACATACCCAAACCTTAAAGTTCCTTTATG-TT-TGTGAGCACCATTGTGCCATAATTACACA
66 GCCACATGCCCACACCTTAAAGTT--TTTATGTTTCTATAAGCACCATTGTGCCATTATTACACA
* * *
31462377 ATAGGAATGCCACGCCAAGTACTTTAAATATCAAATTTGCATCATTATACCTTCGATCAAATAAT
129 ATAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAAT
31462442 AGAAAT
194 AGAAAT
* * * *
31462448 GCACCATATACTAAGATTTAAAATTCACGA-ATTGGCACCATAATACCTTAATGTACAATAAGAA
1 GCACCATATACTAAGATTTCAAATTCAC-ATATTGGCACCATTATACCTTAATGTATAATAGGAA
* * * *
31462512 TGCCACATGCTCACACGCTTAAAGTTTTTTTGTTTCTGTAAGCACCATTGTGCCGTTATTACACA
65 TGCCACATGCCCACAC-CTTAAAGTTTTTATGTTTCTATAAGCACCATTGTGCCATTATTACACA
* * * *
31462577 ATAGGAATGCCACCTCAAGCACTTTAAATATCTAATTTGCATC-TTCACT-CCTTCAATCAAATA
129 ATAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATT-A-TACCTTCGATCAAATA
*
31462640 ATAGGGAAT
192 ATA-GAAAT
* * * * *
31462649 GCATCATATACTAAGATTTCATATTCAAATATAGGCACCATTATACCTAAATGTATAATAGGAAT
1 GCACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAAT
* * * ** * * *
31462714 GCCATATACTTGCACA-CTTAAAGTGTTTT-TGAGTGTGTAAGCACCATTGTGCCGTTATTACAC
66 GCCACATGC--CCACACCTTAAAGT-TTTTATGTTTCTATAAGCACCATTGTGCCATTATTACAC
* * * * * *
31462777 AATAGGAATGCCTCGTCGAGCACTCTAAATATCTAATTTGCACCTTTACT-CCTTCAATCAAATA
128 AATAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTA-TACCTTCGATCAAATA
* *
31462841 GTAGGAAT
192 ATAGAAAT
* * * ** *
31462849 GCATCATATACTAAGATTTCATACTCACATATAAGCACCATTATATCTTAATGTATAATAGGAAT
1 GCACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAAT
* ** * * * * *
31462914 GCCACATGCACACGTCTTAAGGTTTATTAT-TTT-TGTCATCACCATTGTGCGATTATTACACAA
66 GCCACATGCCCACACCTTAAAGTTT-TTATGTTTCTATAAGCACCATTGTGCCATTATTACACAA
* * * ** * *
31462977 TAGGAATGCCACATCTAGTACTTT-AATCATCTAATTTGCATCATTGCACCTTTGATCAATTAAT
130 TAGGAATGCCACGTCAAGTACTTTAAAT-ATCTAATTTGCACCATTATACCTTCGATCAAATAAT
31463041 AGAAAT
194 AGAAAT
* * * **
31463047 GCACCATAT-GTAAAGATTTCATATTCACATATAGGCACCATTATACCTTAATGTAGGATAGGAA
1 GCACCATATACT-AAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAA
* ** * *
31463111 TGCTACACATGCCCACACTTTAGGGTGTTATTAT-TTTC-AAAAGCACCATTGTGCCATTTTTAC
65 TGC--CACATGCCCACACCTTAAAGT-TT-TTATGTTTCTATAAGCACCATTGTGCCATTATTAC
* * * * *
31463174 ACAATAGGAATGCTATGTCATGTATTTTAAATATCTAATTTGCACCATTATACCTTCGATTAAAT
126 ACAATAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAAT
*
31463239 AATAGGAAT
191 AATAGAAAT
* * * * *
31463248 GCACTATATGCTCAA-ATTTGAAATTCATATATTGGCACCATTATACCGTAATGTATAATAGGAA
1 GCACCATATACT-AAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAA
* * * * * *
31463312 TGCCACATACCCACACCTTAACGTTCTTTATG--TCTATAAGCACCGTTGTACCATAATTGCACA
65 TGCCACATGCCCACACCTTAAAGTT-TTTATGTTTCTATAAGCACCATTGTGCCATTATTACACA
* * ** * * * * * * **
31463375 ATTTGTAA-GCCATATCAAGTAGTTTAAATGTATAATTTGCACTATTATAACTTCAATCGTATAA
129 A-TAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAA
31463439 TAGAAAT
193 TAGAAAT
* * * * *
31463446 GTACCATATACTAAGATTTCAAATTCACACATTGACACCATTATACCTGAGTGTATAATAGGAAT
1 GCACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAAT
*
31463511 GCC-CAATGCCCACACACTTAAAAGTTTTT-TCTTTCTATAAGCACCATTGTGCCATTATTACAC
66 GCCAC-ATGCCCACAC-CTT-AAAGTTTTTATGTTTCTATAAGCACCATTGTGCCATTATTACAC
* *
31463574 AATAGGAATGCCATGTCAAGTATTTTAAATATCTAATTTGCAC
128 AATAGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCAC
31463617 AAAGTACACC
Statistics
Matches: 1134, Mismatches: 197, Indels: 74
0.81 0.14 0.05
Matches are distributed among these distances:
197 9 0.01
198 288 0.25
199 197 0.17
200 318 0.28
201 306 0.27
202 12 0.01
203 4 0.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (199 bp):
GCACCATATACTAAGATTTCAAATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAAT
GCCACATGCCCACACCTTAAAGTTTTTATGTTTCTATAAGCACCATTGTGCCATTATTACACAAT
AGGAATGCCACGTCAAGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAG
AAAT
Found at i:31463186 original size:399 final size:390
Alignment explanation
Indices: 31462070--31463616 Score: 1395
Period size: 399 Copynumber: 3.9 Consensus size: 390
31462060 TAAGACTTCG
* * * *
31462070 AATTCACATATTGGCACCATTATACCTCAATGTATAATAGGAACGCCACATTCCTGCAC-CTTAA
1 AATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATGCCACA-TGC-ACACGCTT-A
* * * * * * * * **
31462134 AGGTTTTTCTATTTCTATAAGCACTATTGTGCCATTATTGCACAATGGGAACGCTAGGTCAAGTA
63 AGG-TTTT-TATTTTTGTAAGCACCATTGTGCGATTATTACACAATAGGAATGCCACATCAAGTA
* * * * * *
31462199 CTTTAAATATCTAATTTGCACCATTTTATCTTTGATCAAGTAATAGAAACGCACCATATGCTCAG
126 CTTTAAATATCTAATTTGCATCA-TTCACCTTTGATCAAATAATAGAAATGCACCATATG-TAAG
* * * * * * * *
31462264 ATTTCAAATTCATATATTGACATCATTATACCGTAATGTATAATAGGAATGC--CACATACCCAA
189 ATTTCATATTCAAATATAGGCACCATTATACCTTAATGTATAATAGGAATGCTACACATGCCCAC
* * *
31462327 ACCTTAAAGT-TCCTTTATGTTTGTGAGCACCATTGTGCCATAATTACACAATAGGAATGCCACG
254 A-CTTAAAGTGT--TTTAT-TTTGTAAGCACCATTGTGCCATTATTACACAATAGGAATGCCTCG
* * * *
31462391 CCAAGTACTTTAAATATCAAATTTGCATCATTATACCTTCGATCAAATAATAGAAATGCACCATA
315 TC-AGTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCA-CATA
31462456 TACTAAGATTTAA
378 TACTAAGATTTAA
* * *
31462469 AATTCACGA-ATTGGCACCATAATACCTTAATGTACAATAAGAATGCCACATGCTCACACGCTTA
1 AATTCAC-ATATTGGCACCATTATACCTTAATGTATAATAGGAATGCCACATG--CACACGCTTA
* * * *
31462533 AAGTTTTTTTGTTTCTGTAAGCACCATTGTGCCG-TTATTACACAATAGGAATGCCACCTCAAGC
63 AGGTTTTTAT-TTT-TGTAAGCACCATTGTG-CGATTATTACACAATAGGAATGCCACATCAAGT
** * * *
31462597 ACTTTAAATATCTAATTTGCATC-TTCACTCCTTCAATCAAATAATAGGGAATGCATCATATACT
125 ACTTTAAATATCTAATTTGCATCATTCA--CCTTTGATCAAATAATA-GAAATGCACCATAT-GT
* * *
31462661 AAGATTTCATATTCAAATATAGGCACCATTATACCTAAATGTATAATAGGAATGCCATATACTTG
186 AAGATTTCATATTCAAATATAGGCACCATTATACCTTAATGTATAATAGGAATG-C-TACACATG
* * *
31462726 --CACACTTAAAGTGTTTTTGAGTGTGTAAGCACCATTGTGCCGTTATTACACAATAGGAATGCC
249 CCCACACTTAAAGTG-TTTT-ATTTTGTAAGCACCATTGTGCCATTATTACACAATAGGAATGCC
* * * * *
31462789 TCGTCGAGCACTCTAAATATCTAATTTGCACCTTTACT-CCTTCAATCAAATAGTAGGAATGCAT
312 TCGTC-AGTACTTTAAATATCTAATTTGCACCATTA-TACCTTCGATCAAATAATAGGAATGCA-
*
31462853 CATATACTAAGATTTCA
374 CATATACTAAGATTTAA
* * ** *
31462870 TACTCACATATAAGCACCATTATATCTTAATGTATAATAGGAATGCCACATGCACACGTCTTAAG
1 AATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATGCCACATGCACACG-CTTAAG
* * *
31462935 GTTTATTATTTTTGTCATCACCATTGTGCGATTATTACACAATAGGAATGCCACATCTAGTACTT
65 GTTT-TTATTTTTGTAAGCACCATTGTGCGATTATTACACAATAGGAATGCCACATCAAGTACTT
*
31463000 T-AATCATCTAATTTGCATCATTGCACCTTTGATCAATTAATAGAAATGCACCATATGTAAAGAT
129 TAAAT-ATCTAATTTGCATCATT-CACCTTTGATCAAATAATAGAAATGCACCATATGT-AAGAT
* **
31463064 TTCATATTCACATATAGGCACCATTATACCTTAATGTAGGATAGGAATGCTACACATGCCCACAC
191 TTCATATTCAAATATAGGCACCATTATACCTTAATGTATAATAGGAATGCTACACATGCCCACAC
** ** * *
31463129 TTTAGGGTGTTATTATTTTCAAAAGCACCATTGTGCCATTTTTACACAATAGGAATG-CTATGTC
256 -TTAAAGTGTT-TTATTTT-GTAAGCACCATTGTGCCATTATTACACAATAGGAATGCCT-CGTC
* * *
31463193 ATGTATTTTAAATATCTAATTTGCACCATTATACCTTCGATTAAATAATAGGAATGCACTATATG
317 A-GTACTTTAAATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCAC-ATATA
*
31463258 CTCAA-ATTTGA
380 CT-AAGATTTAA
* * *
31463269 AATTCATATATTGGCACCATTATACCGTAATGTATAATAGGAATGCCACATACCCACAC-CTTAA
1 AATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATGCCACAT--GCACACGCTTAA
* * * * * * * * * * * * *
31463333 CGTTCTTTATGTCTATAAGCACCGTTGTACCATAATTGCACAATTTGTAA-GCCATATCAAGTAG
64 GGTT-TTTATTTTTGTAAGCACCATTGTGCGATTATTACACAA-TAGGAATGCCACATCAAGTAC
* * * * ** ** * *
31463397 TTTAAATGTATAATTTGCA-CTATTATAACTTCAATCGTATAATAGAAATGTACCATATACTAAG
127 TTTAAATATCTAATTTGCATC-ATT-CACCTTTGATCAAATAATAGAAATGCACCATAT-GTAAG
* * * * * * * *
31463461 ATTTCAAATTCACACATTGACACCATTATACCTGAGTGTATAATAGGAATGC-CCA-ATGCCCAC
189 ATTTCATATTCAAATATAGGCACCATTATACCTTAATGTATAATAGGAATGCTACACATG-CC-C
* * *
31463524 ACACTTAAAAGTTTTTTCTTTCTATAAGCACCATTGTGCCATTATTACACAATAGGAATGCCAT-
252 ACACTT-AAAGTGTTTTATTT-TGTAAGCACCATTGTGCCATTATTACACAATAGGAATGCC-TC
*
31463588 GTCAAGTATTTTAAATATCTAATTTGCAC
314 GTC-AGTACTTTAAATATCTAATTTGCAC
31463617 AAAGTACACC
Statistics
Matches: 941, Mismatches: 156, Indels: 103
0.78 0.13 0.09
Matches are distributed among these distances:
396 6 0.01
397 10 0.01
398 163 0.17
399 494 0.52
400 91 0.10
401 168 0.18
402 5 0.01
403 1 0.00
404 3 0.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (390 bp):
AATTCACATATTGGCACCATTATACCTTAATGTATAATAGGAATGCCACATGCACACGCTTAAGG
TTTTTATTTTTGTAAGCACCATTGTGCGATTATTACACAATAGGAATGCCACATCAAGTACTTTA
AATATCTAATTTGCATCATTCACCTTTGATCAAATAATAGAAATGCACCATATGTAAGATTTCAT
ATTCAAATATAGGCACCATTATACCTTAATGTATAATAGGAATGCTACACATGCCCACACTTAAA
GTGTTTTATTTTGTAAGCACCATTGTGCCATTATTACACAATAGGAATGCCTCGTCAGTACTTTA
AATATCTAATTTGCACCATTATACCTTCGATCAAATAATAGGAATGCACATATACTAAGATTTAA
Found at i:31471103 original size:30 final size:29
Alignment explanation
Indices: 31471069--31471125 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
31471059 ACTCTTCTCC
* *
31471069 GAGATGAACTTCTAAAGGATATTATTATAT
1 GAGATGAACCTCAAAAGGATATT-TTATAT
*
31471099 GAGATTAACCTCAAAAGGATATTTTAT
1 GAGATGAACCTCAAAAGGATATTTTAT
31471126 TAATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (29 bp):
GAGATGAACCTCAAAAGGATATTTTATAT
Found at i:31476549 original size:58 final size:58
Alignment explanation
Indices: 31476459--31476574 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
31476449 CAATTTACAT
31476459 TTGTACATCCCTACTCATAGATATTACTGTAGCATTCTTGAAAGGTATAGAAAGAATA
1 TTGTACATCCCTACTCATAGATATTACTGTAGCATTCTTGAAAGGTATAGAAAGAATA
31476517 TTGTACATCCCTACTCATAGATATTACTGTAGCATTCTTGAAAGGTATAGAAAGAATA
1 TTGTACATCCCTACTCATAGATATTACTGTAGCATTCTTGAAAGGTATAGAAAGAATA
31476575 AGACGGATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (58 bp):
TTGTACATCCCTACTCATAGATATTACTGTAGCATTCTTGAAAGGTATAGAAAGAATA
Found at i:31480359 original size:34 final size:34
Alignment explanation
Indices: 31480321--31480445 Score: 241
Period size: 34 Copynumber: 3.7 Consensus size: 34
31480311 CTTTGTTTTT
31480321 TAGGTTACGGATGATGACTTATTCATCTGCTAGG
1 TAGGTTACGGATGATGACTTATTCATCTGCTAGG
31480355 TAGGTTACGGATGATGACTTATTCATCTGCTAGG
1 TAGGTTACGGATGATGACTTATTCATCTGCTAGG
31480389 TAGGTTACGGATGATGACTTATTCATCTGCTAGG
1 TAGGTTACGGATGATGACTTATTCATCTGCTAGG
*
31480423 TAGGTTACAGATGATGACTTATT
1 TAGGTTACGGATGATGACTTATT
31480446 GAAACTAATC
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
34 90 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.36
Consensus pattern (34 bp):
TAGGTTACGGATGATGACTTATTCATCTGCTAGG
Found at i:31494246 original size:2 final size:2
Alignment explanation
Indices: 31494239--31494265 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31494229 CAGATTAGGA
31494239 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
31494266 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31494270 original size:2 final size:2
Alignment explanation
Indices: 31494265--31494289 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31494255 ATATATATAT
31494265 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
31494290 ATTCTTGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31496003 original size:24 final size:25
Alignment explanation
Indices: 31495963--31496018 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
31495953 ACACACGGGC
* *
31495963 CTCTTTCTAGTT-TTTTTTTTTTTT
1 CTCTTTCTAGTTCTTTTCTTCTTTT
31495987 CTCTTTCT-GCTTCTTTTCTTCTTTT
1 CTCTTTCTAG-TTCTTTTCTTCTTTT
31496012 CTTCTTT
1 C-TCTTT
31496019 TTTTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 10 0.37
25 11 0.41
26 5 0.19
ACGTcount: A:0.02, C:0.21, G:0.04, T:0.73
Consensus pattern (25 bp):
CTCTTTCTAGTTCTTTTCTTCTTTT
Found at i:31496017 original size:16 final size:17
Alignment explanation
Indices: 31495983--31496019 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
31495973 TTTTTTTTTT
31495983 TTTTCTCTTTCTGCTTC
1 TTTTCTCTTTCTGCTTC
31496000 TTTTCTTCTTT-T-CTTC
1 TTTTC-TCTTTCTGCTTC
31496016 TTTT
1 TTTT
31496020 TTTTTTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCTCTTTCTGCTTC
Found at i:31496022 original size:19 final size:20
Alignment explanation
Indices: 31495977--31496022 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
31495967 TTCTAGTTTT
*
31495977 TTTTTTTTTTCTCTTTCTGC
1 TTTTTTTCTTCTCTTTCTGC
* *
31495997 TTCTTTTCTTCT-TTTCTTC
1 TTTTTTTCTTCTCTTTCTGC
31496016 TTTTTTT
1 TTTTTTT
31496023 TTTCACTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTTCTCTTTCTGC
Found at i:31500125 original size:23 final size:23
Alignment explanation
Indices: 31499660--31500157 Score: 348
Period size: 23 Copynumber: 21.8 Consensus size: 23
31499650 TTTGAAACAA
* *
31499660 CATGGTGAGAATATGTGAGACGA
1 CATGGTGAGAATATGTGACACGC
* *
31499683 CATGGACG-GAATATGTGACACGG
1 CATGG-TGAGAATATGTGACACGC
* * **
31499706 CATGTTGAGAATATGTGAGACAA
1 CATGGTGAGAATATGTGACACGC
* *
31499729 CATGGAGGGAATATGTGACACGC
1 CATGGTGAGAATATGTGACACGC
* * *
31499752 CACGG-AAGGAATATGTGACATGC
1 CATGGTGA-GAATATGTGACACGC
** *
31499775 CGGGGTGA-AA-ATGTGACAAGC
1 CATGGTGAGAATATGTGACACGC
* * *
31499796 CATGGTGGGAAAATGTGACATGC
1 CATGGTGAGAATATGTGACACGC
* * * *
31499819 CATAGTGAGAATATGTGAGATGG
1 CATGGTGAGAATATGTGACACGC
*
31499842 CATGGTGAGAATATGTGACACGG
1 CATGGTGAGAATATGTGACACGC
* * * * *
31499865 TA-GGATTTAGAGTTTGTGACATGC
1 CATGG--TGAGAATATGTGACACGC
* * **
31499889 CATAGTGAGAATGTGTGACACAA
1 CATGGTGAGAATATGTGACACGC
* *
31499912 CATGGTGAGAATATGTAACACGA
1 CATGGTGAGAATATGTGACACGC
* *
31499935 CATGGTGGGAATGTGTGACACGC
1 CATGGTGAGAATATGTGACACGC
* * * *
31499958 CATAGTGGGAATGTGTGACATAG-
1 CATGGTGAGAATATGTGACA-CGC
* *
31499981 CATTGTGAGAATATGTGACACGG
1 CATGGTGAGAATATGTGACACGC
* *
31500004 CATGGCGAGAATATGTGACATGGC
1 CATGGTGAGAATATGTGACA-CGC
*
31500028 C-TGGTGAGAATATGTGACATGC
1 CATGGTGAGAATATGTGACACGC
* * *
31500050 TAGGGTGAGAATATGTGACACGT
1 CATGGTGAGAATATGTGACACGC
* * * * *
31500073 TATGGAGTGAATATGTGAGACGA
1 CATGGTGAGAATATGTGACACGC
*
31500096 CATGGTGAGAATATGTGACACGT
1 CATGGTGAGAATATGTGACACGC
*
31500119 CAGGGTGAG-A-ATGTGACACGC
1 CATGGTGAGAATATGTGACACGC
* * *
31500140 CACGATGAGAATAGGTGA
1 CATGGTGAGAATATGTGA
31500158 GAATATGCGA
Statistics
Matches: 373, Mismatches: 87, Indels: 30
0.76 0.18 0.06
Matches are distributed among these distances:
21 32 0.09
22 12 0.03
23 309 0.83
24 19 0.05
25 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.33, T:0.23
Consensus pattern (23 bp):
CATGGTGAGAATATGTGACACGC
Found at i:31500270 original size:23 final size:24
Alignment explanation
Indices: 31500244--31500313 Score: 101
Period size: 23 Copynumber: 3.0 Consensus size: 24
31500234 GGTGGGAAAG
31500244 TGTGACACGACATGG-TGAGAATA
1 TGTGACACGACATGGATGAGAATA
*
31500267 TGTGACACGAAATGGATGA-AATA
1 TGTGACACGACATGGATGAGAATA
*
31500290 TGTGACACGCCATGGATG-GAATA
1 TGTGACACGACATGGATGAGAATA
31500313 T
1 T
31500314 CTAACATGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 39 0.93
24 3 0.07
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.23
Consensus pattern (24 bp):
TGTGACACGACATGGATGAGAATA
Found at i:31500343 original size:23 final size:23
Alignment explanation
Indices: 31500262--31500349 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
31500252 GACATGGTGA
* ** *
31500262 GAATATGTGACACGAAATGGATG
1 GAATATGTGACATGCCATAGATG
* * *
31500285 AAATATGTGACACGCCATGGATG
1 GAATATGTGACATGCCATAGATG
* * * *
31500308 GAATATCTAACATGCCATAGCTT
1 GAATATGTGACATGCCATAGATG
*
31500331 GAATATGTGACATGACATA
1 GAATATGTGACATGCCATA
31500350 AATTTAAATA
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (23 bp):
GAATATGTGACATGCCATAGATG
Found at i:31503156 original size:2 final size:2
Alignment explanation
Indices: 31503149--31503195 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
31503139 TAGGTAGGCC
31503149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31503191 AT AT A
1 AT AT A
31503196 NNNNNNNNNN
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31503256 original size:15 final size:14
Alignment explanation
Indices: 31503232--31503265 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
31503222 NNNNNNNNNN
31503232 AATA-ATATATAAT
1 AATATATATATAAT
31503245 ATATATATATATAAT
1 A-ATATATATATAAT
31503260 AATATA
1 AATATA
31503266 AGACTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 8 0.42
15 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATATATAAT
Found at i:31510936 original size:21 final size:21
Alignment explanation
Indices: 31510912--31510953 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31510902 GACTCTTCAC
31510912 ACCATTGAACAAAGGAATTGA
1 ACCATTGAACAAAGGAATTGA
31510933 ACCATTGAACAAAGGAATTGA
1 ACCATTGAACAAAGGAATTGA
31510954 CCTCAAGGCA
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:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (21 bp):
ACCATTGAACAAAGGAATTGA
Found at i:31514370 original size:16 final size:18
Alignment explanation
Indices: 31514349--31514387 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
31514339 AAACAAAAAT
31514349 AAAATAATAATAA-TA-A
1 AAAATAATAATAAGTATA
31514365 AAAATAATAATAAGTATA
1 AAAATAATAATAAGTATA
31514383 AAAAT
1 AAAAT
31514388 GTAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 2 0.10
18 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATAATAATAAGTATA
Found at i:31514372 original size:13 final size:14
Alignment explanation
Indices: 31514346--31514377 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
31514336 GACAAACAAA
31514346 AATAAAATAATAAT
1 AATAAAATAATAAT
31514360 AATAAAA-AATAAT
1 AATAAAATAATAAT
31514373 AATAA
1 AATAA
31514378 GTATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:31520531 original size:13 final size:13
Alignment explanation
Indices: 31520488--31520531 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
31520478 TGCCAAAAAC
31520488 AAAAACAAACAAA-
1 AAAAA-AAACAAAG
* *
31520501 CAAAACAACAAAG
1 AAAAAAAACAAAG
31520514 AAAAAAAACAAAG
1 AAAAAAAACAAAG
31520527 AAAAA
1 AAAAA
31520532 TCAACCTGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.82, C:0.14, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAG
Found at i:31522507 original size:3 final size:3
Alignment explanation
Indices: 31522499--31522542 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
31522489 CATTTTGTAC
*
31522499 TTA TTA TTA -TA TT- TTA TTA TTA TTA TTA TTA TT- TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
31522543 TGTCGATGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TTA
Found at i:31529723 original size:13 final size:12
Alignment explanation
Indices: 31529698--31529731 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
31529688 AAATCATCAA
31529698 ATATATTTTTTT
1 ATATATTTTTTT
31529710 ATATATTCTTTTT
1 ATATATT-TTTTT
*
31529723 ATGTATTTT
1 ATATATTTT
31529732 ACAAGTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (12 bp):
ATATATTTTTTT
Found at i:31535805 original size:15 final size:15
Alignment explanation
Indices: 31535781--31535813 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
31535771 GTCTTATATA
31535781 AATTTATAATTT-AT
1 AATTTATAATTTAAT
31535795 AATTTATTAATTTAAT
1 AATTTA-TAATTTAAT
31535811 AAT
1 AAT
31535814 AATAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 6 0.35
16 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTATAATTTAAT
Found at i:31549996 original size:36 final size:36
Alignment explanation
Indices: 31549895--31549998 Score: 172
Period size: 36 Copynumber: 2.9 Consensus size: 36
31549885 ATTGAACTAT
* * * *
31549895 TTCTTTTCTTTTAACAAGTTTTGGGCATGAGCTTGT
1 TTCTTTTCTTTTAATAAGTTTTAGGCATGGGCTTGC
31549931 TTCTTTTCTTTTAATAAGTTTTAGGCATGGGCTTGC
1 TTCTTTTCTTTTAATAAGTTTTAGGCATGGGCTTGC
31549967 TTCTTTTCTTTTAATAAGTTTTAGGCATGGGC
1 TTCTTTTCTTTTAATAAGTTTTAGGCATGGGC
31549999 CTCTTCCATA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.17, C:0.13, G:0.19, T:0.50
Consensus pattern (36 bp):
TTCTTTTCTTTTAATAAGTTTTAGGCATGGGCTTGC
Found at i:31559357 original size:23 final size:24
Alignment explanation
Indices: 31559330--31559375 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
31559320 TTAATGAAAT
31559330 AATATTATTTT-ATTCATATTTTG
1 AATATTATTTTAATTCATATTTTG
* *
31559353 AATATTTTTTTAATTCATTTTTT
1 AATATTATTTTAATTCATATTTT
31559376 TTAGCCGTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (24 bp):
AATATTATTTTAATTCATATTTTG
Found at i:31559512 original size:29 final size:30
Alignment explanation
Indices: 31559479--31559536 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
31559469 TGGGGCAAAT
31559479 TTTTC-AAAATTACACTTTTGCCCCAAAAC
1 TTTTCAAAAATTACACTTTTGCCCCAAAAC
*
31559508 TTTTCAAAAATTACATTTTTGCCCCAAAA
1 TTTTCAAAAATTACACTTTTGCCCCAAAA
31559537 ATTGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTCAAAAATTACACTTTTGCCCCAAAAC
Found at i:31559738 original size:20 final size:20
Alignment explanation
Indices: 31559721--31559758 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
31559711 CCTCAAATCT
*
31559721 TACTCCAGTAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
31559741 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
31559759 GGAGCGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:31569535 original size:122 final size:122
Alignment explanation
Indices: 31569288--31569541 Score: 393
Period size: 122 Copynumber: 2.1 Consensus size: 122
31569278 AATATTGAAC
31569288 TTTATTAAGTATTAAAGTGAGACAAACTACCACATTAACAAATCTCATTTTAGAATTTTATTAAG
1 TTTATTAAGTATTAAAGTGAGACAAACTACCACATTAACAAATCTCATTTTAGAATTTTATTAAG
* * * *
31569353 TTTTAAGTTTTTTTCTTTTTTGTTAAATATTGAATTTTATTAAATATCAAAGTGACT
66 TTTTAAGTTGTTTTCTTCTCTGTTAAATATTGAATTTTATTAAATATCAAACTGACT
* * * * **
31569410 TTTAATAAGTATTAATGTGAGACAAACTATCACATTCACAAATCTTGTTTTAGAATTTTATTAAG
1 TTTATTAAGTATTAAAGTGAGACAAACTACCACATTAACAAATCTCATTTTAGAATTTTATTAAG
*
31569475 TTTTAAGTTGTTTTCTTCTCTGTTAAATATTGAATTTTATTAAATATTAAACT-ACAT
66 TTTTAAGTTGTTTTCTTCTCTGTTAAATATTGAATTTTATTAAATATCAAACTGAC-T
31569532 TTTATTAAGT
1 TTTATTAAGT
31569542 TTTGGAAGGA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
121 2 0.02
122 117 0.98
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (122 bp):
TTTATTAAGTATTAAAGTGAGACAAACTACCACATTAACAAATCTCATTTTAGAATTTTATTAAG
TTTTAAGTTGTTTTCTTCTCTGTTAAATATTGAATTTTATTAAATATCAAACTGACT
Found at i:31573643 original size:33 final size:33
Alignment explanation
Indices: 31573592--31573665 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
31573582 ACTAACGTGA
* *
31573592 CATACTAACATGTTATAATTAATAATGATGTGG
1 CATACTAACATATCATAATTAATAATGATGTGG
* * *
31573625 CATGCTAACATATCATAATTGATGATGATGTGG
1 CATACTAACATATCATAATTAATAATGATGTGG
31573658 CATACTAA
1 CATACTAA
31573666 TATGATATGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (33 bp):
CATACTAACATATCATAATTAATAATGATGTGG
Found at i:31578717 original size:182 final size:181
Alignment explanation
Indices: 31578410--31578772 Score: 717
Period size: 182 Copynumber: 2.0 Consensus size: 181
31578400 TGTAAATTTT
31578410 TAAATAATAATGTAAATTACATCTTAATTACTTTTAAACATTTTATATTTTTATGCTGATATCTC
1 TAAATAATAATGTAAATTACATCTTAATTACTTTTAAACATTTTATATTTTTATGCTGATATCTC
31578475 TAATTAATATTAAATATAAATATATTAATAAACTATACATATAACTATAAATATAAAATATAATA
66 TAATTAATATTAAATATAAATATATTAATAAACTATACATATAACTATAAATATAAAATATAATA
31578540 TTTTCTATATATACCTCAAGACGGAAACTCTAAACTTGACCCAACTTTGAC
131 TTTTCTATATATACCTCAAGACGGAAACTCTAAACTTGACCCAACTTTGAC
31578591 NTAAATAATAATGTAAATTACATCTTAATTACTTTTAAACATTTTATATTTTTATGCTGATATCT
1 -TAAATAATAATGTAAATTACATCTTAATTACTTTTAAACATTTTATATTTTTATGCTGATATCT
31578656 CTAATTAATATTAAATATAAATATATTAATAAACTATACATATAACTATAAATATAAAATATAAT
65 CTAATTAATATTAAATATAAATATATTAATAAACTATACATATAACTATAAATATAAAATATAAT
31578721 ATTTTCTATATATACCTCAAGACGGAAACTCTAAACTTGACCCAACTTTGAC
130 ATTTTCTATATATACCTCAAGACGGAAACTCTAAACTTGACCCAACTTTGAC
31578773 CCCATTTTTT
Statistics
Matches: 181, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (181 bp):
TAAATAATAATGTAAATTACATCTTAATTACTTTTAAACATTTTATATTTTTATGCTGATATCTC
TAATTAATATTAAATATAAATATATTAATAAACTATACATATAACTATAAATATAAAATATAATA
TTTTCTATATATACCTCAAGACGGAAACTCTAAACTTGACCCAACTTTGAC
Found at i:31593196 original size:20 final size:20
Alignment explanation
Indices: 31593171--31593216 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
31593161 TTTTGACCCC
31593171 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
31593191 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
31593211 ATTTGA
1 ATTTGA
31593217 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:31593292 original size:28 final size:27
Alignment explanation
Indices: 31593261--31593313 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
31593251 TTTGGAGTAT
*
31593261 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
31593289 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
31593314 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:31593319 original size:28 final size:28
Alignment explanation
Indices: 31593261--31593319 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
31593251 TTTGGAGTAT
* *
31593261 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
31593289 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
31593317 AGG
1 AGG
31593320 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:31597154 original size:19 final size:19
Alignment explanation
Indices: 31597130--31597167 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
31597120 ACTTTTTAAC
* *
31597130 CTCAAATCCTACTCTAATA
1 CTCAAATCATACTCCAATA
31597149 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
31597168 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:31600453 original size:19 final size:19
Alignment explanation
Indices: 31600429--31600466 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31600419 ACTTCTTAAC
*
31600429 CTCAAATCATACTCTAATA
1 CTCAAATCATACTCCAATA
31600448 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
31600467 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:31601058 original size:22 final size:21
Alignment explanation
Indices: 31601033--31601086 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
31601023 TTTTTATTAG
31601033 TTCTTGCTTTTGTTTCCTTTTT
1 TTCTT-CTTTTGTTTCCTTTTT
* * *
31601055 TTCTCCTTTTTTTTTCTTTTTT
1 TTCTTC-TTTTGTTTCCTTTTT
31601077 TTCTTCTTTT
1 TTCTTCTTTT
31601087 TCTTTCTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.00, C:0.19, G:0.04, T:0.78
Consensus pattern (21 bp):
TTCTTCTTTTGTTTCCTTTTT
Found at i:31601066 original size:13 final size:11
Alignment explanation
Indices: 31601040--31601087 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
31601030 TAGTTCTTGC
* *
31601040 TTTTGTTTCCT
1 TTTTTTTTCTT
* *
31601051 TTTTTTCTCCT
1 TTTTTTTTCTT
31601062 TTTTTTTTCTT
1 TTTTTTTTCTT
31601073 TTTTTTCTTCTT
1 TTTTTT-TTCTT
31601085 TTT
1 TTT
31601088 CTTTCTTCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 24 0.75
12 8 0.25
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:31601074 original size:9 final size:9
Alignment explanation
Indices: 31601039--31601091 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
31601029 TTAGTTCTTG
*
31601039 CTTTTGTTTC
1 CTTTT-TTTT
31601049 CTTTTTTTCT
1 CTTTTTTT-T
31601059 CCTTTTTTTTT
1 -C-TTTTTTTT
31601070 CTTTTTTTT
1 CTTTTTTTT
*
31601079 CTTCTTTTT
1 CTTTTTTTT
31601088 CTTT
1 CTTT
31601092 CTTCCCACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
9 22 0.59
10 6 0.16
11 2 0.05
12 7 0.19
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:31601087 original size:22 final size:22
Alignment explanation
Indices: 31601040--31601094 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
31601030 TAGTTCTTGC
* *
31601040 TTTTGTTTCCTTTTTTTCTCCT
1 TTTTCTTTCTTTTTTTTCTCCT
* *
31601062 TTTTTTTTCTTTTTTTTCTTCT
1 TTTTCTTTCTTTTTTTTCTCCT
31601084 TTTTCTTTCTT
1 TTTTCTTTCTT
31601095 CCCACAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTTCTTTCTTTTTTTTCTCCT
Found at i:31601092 original size:13 final size:12
Alignment explanation
Indices: 31601050--31601095 Score: 60
Period size: 11 Copynumber: 3.9 Consensus size: 12
31601040 TTTTGTTTCC
*
31601050 TTTTTTTC-TCC
1 TTTTTTTCTTCT
31601061 TTTTTTT-TTCT
1 TTTTTTTCTTCT
31601072 TTTTTTTCTTCT
1 TTTTTTTCTTCT
31601084 TTTTCTTTCTTC
1 TTTT-TTTCTTC
31601096 CCACAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 16 0.52
12 8 0.26
13 7 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:31601201 original size:25 final size:25
Alignment explanation
Indices: 31601168--31601218 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
31601158 TTTTGGCTCA
* *
31601168 TTTTTTCCTTCC-CTTCTCTCTACCT
1 TTTTTTCCTCCCACTCCTCTC-ACCT
31601193 TTTTTTCCTCCCACTCCTCTCACCT
1 TTTTTTCCTCCCACTCCTCTCACCT
31601218 T
1 T
31601219 CTCCCTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.06, C:0.43, G:0.00, T:0.51
Consensus pattern (25 bp):
TTTTTTCCTCCCACTCCTCTCACCT
Found at i:31601684 original size:18 final size:19
Alignment explanation
Indices: 31601651--31601686 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31601641 CAAAACTAAA
*
31601651 AAAAAAAAAGGGAAGAAAG
1 AAAAAAAAAGGCAAGAAAG
31601670 AAAAAAAAA-GCAAGAAA
1 AAAAAAAAAGGCAAGAAA
31601687 TAAGCAGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGGCAAGAAAG
Found at i:31602826 original size:53 final size:53
Alignment explanation
Indices: 31602746--31602907 Score: 261
Period size: 53 Copynumber: 3.1 Consensus size: 53
31602736 TGGCAAACCT
* * * *
31602746 ATGGTTTGCAGTGCTCGACTTTGAAGGAGACAAGTGTTTGCATAGAAGTTTTA
1 ATGGTTTGCAATTCTCGACTTAGAAGGAGACAAGTGTTTGCGTAGAAGTTTTA
31602799 ATGGTTTGCAATTCTCGACTTAGAAGGAGACAAGTGTTTGCGTAGAAGTTTTA
1 ATGGTTTGCAATTCTCGACTTAGAAGGAGACAAGTGTTTGCGTAGAAGTTTTA
* * *
31602852 ATGGTTTGCAATTCTCGATTTAGAAGGAGACAAGTGTTTGTGTAGAAGTTCTA
1 ATGGTTTGCAATTCTCGACTTAGAAGGAGACAAGTGTTTGCGTAGAAGTTTTA
31602905 ATG
1 ATG
31602908 ACTAGGCACT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 102 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (53 bp):
ATGGTTTGCAATTCTCGACTTAGAAGGAGACAAGTGTTTGCGTAGAAGTTTTA
Found at i:31603044 original size:93 final size:93
Alignment explanation
Indices: 31602885--31603072 Score: 304
Period size: 93 Copynumber: 2.0 Consensus size: 93
31602875 AAGGAGACAA
* *
31602885 GTGTTTGTGTAGAAGTTCTAATGACTAGGCACTCACAAAGATCAAGATTGAGAGCTTGGTCTGTA
1 GTGTTTGCGTAGAAGTTCTAATGACTAGGCACTCACAAAGATCAAGATTGAGAGCTTGGTCCGTA
31602950 TATTTATATTGCGTAAAGTGATAAAATT
66 TATTTATATTGCGTAAAGTGATAAAATT
* * * * *
31602978 GTGTTTGCGTGGAAGTTTTAATGACTAGGCACTCACCAAGATGAAGATTGAGAGCTTGTTCCGTA
1 GTGTTTGCGTAGAAGTTCTAATGACTAGGCACTCACAAAGATCAAGATTGAGAGCTTGGTCCGTA
*
31603043 TATTTATATTGTGTAAAGTGATAAAATT
66 TATTTATATTGCGTAAAGTGATAAAATT
31603071 GT
1 GT
31603073 TATACGAGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 87 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (93 bp):
GTGTTTGCGTAGAAGTTCTAATGACTAGGCACTCACAAAGATCAAGATTGAGAGCTTGGTCCGTA
TATTTATATTGCGTAAAGTGATAAAATT
Found at i:31603869 original size:4 final size:4
Alignment explanation
Indices: 31603860--31603901 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
31603850 CTCCCATTAT
*
31603860 TTTA TTTA TTTA TTTA -TTA -TTA TATA TTTA TTTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT
31603902 TTAACTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 6 0.18
4 24 0.71
5 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:31603887 original size:18 final size:17
Alignment explanation
Indices: 31603856--31603897 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
31603846 CATTCTCCCA
*
31603856 TTATTTTATTTATTTAT
1 TTATTTTATATATTTAT
31603873 TTATTATTATATATTTATT
1 TTATT-TTATATATTTA-T
31603892 TTATTT
1 TTATTT
31603898 ATTTTTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 11 0.50
19 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTATATATTTAT
Found at i:31607491 original size:17 final size:18
Alignment explanation
Indices: 31607459--31607493 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
31607449 TGTAAATGAT
*
31607459 GAAAACAATTTAAATAAA
1 GAAAACAATCTAAATAAA
31607477 GAAAACAA-CTAAATAAA
1 GAAAACAATCTAAATAAA
31607494 ACAACTAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.17
Consensus pattern (18 bp):
GAAAACAATCTAAATAAA
Found at i:31608044 original size:11 final size:11
Alignment explanation
Indices: 31608025--31608067 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
31608015 AAATCATTGT
*
31608025 ATTTTCAACGG
1 ATTTACAACGG
*
31608036 ATTTGCAACGG
1 ATTTACAACGG
31608047 ATTTACAACGG
1 ATTTACAACGG
*
31608058 ATTTCCAACG
1 ATTTACAACG
31608068 AAATTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (11 bp):
ATTTACAACGG
Found at i:31608055 original size:22 final size:22
Alignment explanation
Indices: 31608025--31608067 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
31608015 AAATCATTGT
* *
31608025 ATTTTCAACGGATTTGCAACGG
1 ATTTACAACGGATTTCCAACGG
31608047 ATTTACAACGGATTTCCAACG
1 ATTTACAACGGATTTCCAACG
31608068 AAATTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (22 bp):
ATTTACAACGGATTTCCAACGG
Found at i:31608349 original size:64 final size:64
Alignment explanation
Indices: 31608233--31608377 Score: 229
Period size: 64 Copynumber: 2.3 Consensus size: 64
31608223 ACTGTTTAAT
* * **
31608233 ATTTT-CAACGGAATTTTTCGTTGGAACCGTAAACTCATCAAAGTAATTGGGTGTAATCTATAA
1 ATTTTCCAACGGAATTTTTCATTGGAACCGTAAACTCATCAAACTAACCGGGTGTAATCTATAA
31608296 ATTTTCCAACGGAATTTTTCATTGGAACCGTAAACTCATCAAACTAACCGGGTGTAATCTATAA
1 ATTTTCCAACGGAATTTTTCATTGGAACCGTAAACTCATCAAACTAACCGGGTGTAATCTATAA
* *
31608360 ATTTTCCAATGAAATTTT
1 ATTTTCCAACGGAATTTT
31608378 CAACGAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
63 5 0.07
64 70 0.93
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (64 bp):
ATTTTCCAACGGAATTTTTCATTGGAACCGTAAACTCATCAAACTAACCGGGTGTAATCTATAA
Found at i:31608400 original size:12 final size:12
Alignment explanation
Indices: 31608384--31608415 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
31608374 TTTTCAACGA
31608384 AAAATTTCGTTG
1 AAAATTTCGTTG
*
31608396 GAAATTTCGTTG
1 AAAATTTCGTTG
31608408 AAAATTTC
1 AAAATTTC
31608416 ATCTTCAGNT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (12 bp):
AAAATTTCGTTG
Found at i:31609277 original size:2 final size:2
Alignment explanation
Indices: 31609270--31609296 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31609260 GCTATAGAAA
31609270 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
31609297 GATAAACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31626067 original size:23 final size:23
Alignment explanation
Indices: 31626018--31626067 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
31626008 GATATTATTT
* *
31626018 AATTGATAAATTAATAAATTAAT
1 AATTGATAAATTAATAAATAAAA
* * *
31626041 AATTTATACATTAATTAATAAAA
1 AATTGATAAATTAATAAATAAAA
31626064 AATT
1 AATT
31626068 AATTTATCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AATTGATAAATTAATAAATAAAA
Found at i:31636144 original size:13 final size:13
Alignment explanation
Indices: 31636105--31636153 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
31636095 AACACGAGTC
31636105 TTATTTTTT-TAA
1 TTATTTTTTATAA
31636117 TT-TTTTTTCATAA
1 TTATTTTTT-ATAA
*
31636130 TTATTTTTTAAAA
1 TTATTTTTTATAA
*
31636143 TTATATTTTAT
1 TTATTTTTTAT
31636154 TACATGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 6 0.19
12 2 0.06
13 17 0.55
14 6 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTTTTTATAA
Found at i:31643252 original size:20 final size:21
Alignment explanation
Indices: 31643217--31643255 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
31643207 AAAACTAATA
*
31643217 AATAACAATCAAATTAAAAGG
1 AATAACAATAAAATTAAAAGG
31643238 AATAAC-ATAAAATTAAAA
1 AATAACAATAAAATTAAAA
31643256 TAACTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (21 bp):
AATAACAATAAAATTAAAAGG
Found at i:31643509 original size:17 final size:17
Alignment explanation
Indices: 31643472--31643505 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
31643462 CAAGACGCTC
*
31643472 TAAATTAATTAATAATT
1 TAAATAAATTAATAATT
31643489 TAAATAAATTAA-AATT
1 TAAATAAATTAATAATT
31643505 T
1 T
31643506 TAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATAAATTAATAATT
Found at i:31644222 original size:13 final size:13
Alignment explanation
Indices: 31644206--31644230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31644196 AAATATACTT
31644206 TTTTTATATATTC
1 TTTTTATATATTC
31644219 TTTTTATATATT
1 TTTTTATATATT
31644231 TAATAGGTGT
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTATATATTC
Found at i:31646760 original size:14 final size:14
Alignment explanation
Indices: 31646741--31646767 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31646731 TTAGTTTAAA
31646741 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
31646755 TTTTAGTTAATTA
1 TTTTAGTTAATTA
31646768 ATTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:31650981 original size:12 final size:12
Alignment explanation
Indices: 31650961--31651010 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
31650951 TAGGGGTTAG
31650961 AAAAA-AAAGAA
1 AAAAAGAAAGAA
31650972 AAAAAGAAAG-A
1 AAAAAGAAAGAA
* *
31650983 AGAAAGAAAAAA
1 AAAAAGAAAGAA
31650995 AGAAAAGAAAAGAA
1 A-AAAAG-AAAGAA
31651009 AA
1 AA
31651011 GAAATAGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
11 14 0.45
12 6 0.19
13 5 0.16
14 6 0.19
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAA
Found at i:31650986 original size:24 final size:24
Alignment explanation
Indices: 31650959--31651004 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
31650949 TTTAGGGGTT
31650959 AGAAA-AAAAAGAAAAAAAGAAAGA
1 AGAAAGAAAAA-AAAAAAAGAAAGA
*
31650983 AGAAAGAAAAAAAGAAAAGAAA
1 AGAAAGAAAAAAAAAAAAGAAA
31651005 AGAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (24 bp):
AGAAAGAAAAAAAAAAAAGAAAGA
Found at i:31651002 original size:5 final size:5
Alignment explanation
Indices: 31650959--31651014 Score: 52
Period size: 5 Copynumber: 12.0 Consensus size: 5
31650949 TTTAGGGGTT
31650959 AGAAA A-AAA AG-AA A-AAA AG-AA AGAAGA A-AGAA A-AAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA-A AGA-AA AGAAA AGAAA AGAAA
31651005 AGAAA AGAAA
1 AGAAA AGAAA
31651015 TAGAGTGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
4 17 0.39
5 24 0.55
6 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:31651670 original size:16 final size:15
Alignment explanation
Indices: 31651651--31651693 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
31651641 TTACTTATTT
31651651 TTAATTATTTTTATAA
1 TTAATTATTTTTA-AA
*
31651667 TTAATTTATTTTTAAG
1 TTAA-TTATTTTTAAA
*
31651683 TGAATTATTTT
1 TTAATTATTTT
31651694 AAGTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
TTAATTATTTTTAAA
Found at i:31652840 original size:14 final size:14
Alignment explanation
Indices: 31652821--31652847 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31652811 TTAGTTTAAA
31652821 TTTTAGTTAATTAG
1 TTTTAGTTAATTAG
31652835 TTTTAGTTAATTA
1 TTTTAGTTAATTA
31652848 ATTAATTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTTTAGTTAATTAG
Found at i:31654339 original size:2 final size:2
Alignment explanation
Indices: 31654332--31654374 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
31654322 AACTACATGG
31654332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31654374 A
1 A
31654375 GTCCAACAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31655450 original size:12 final size:12
Alignment explanation
Indices: 31655421--31655465 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
31655411 TTTTCAAAGC
*
31655421 AAAA-AAAAAAG
1 AAAATAAAAAAT
*
31655432 AACAATAGAAAAT
1 AA-AATAAAAAAT
31655445 AAAATAAAAAAT
1 AAAATAAAAAAT
31655457 AAAATAAAA
1 AAAATAAAA
31655466 GGAAAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 2 0.07
12 20 0.69
13 7 0.24
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.11
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:31655471 original size:17 final size:17
Alignment explanation
Indices: 31655422--31655477 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
31655412 TTTCAAAGCA
* *
31655422 AAAAAAAAAGAACAATAG
1 AAAATAAAAGAA-AAAAG
* *
31655440 AAAATAAAATAAAAAAT
1 AAAATAAAAGAAAAAAG
*
31655457 AAAATAAAAGGAAAAAG
1 AAAATAAAAGAAAAAAG
31655474 AAAA
1 AAAA
31655478 AATAATATCT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAGAAAAAAG
Found at i:31657597 original size:11 final size:12
Alignment explanation
Indices: 31657576--31657600 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31657566 CTCACACATC
31657576 TTTTCATTTTTT
1 TTTTCATTTTTT
31657588 TTTTCATTTTTT
1 TTTTCATTTTTT
31657600 T
1 T
31657601 GGAAAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCATTTTTT
Found at i:31658129 original size:2 final size:2
Alignment explanation
Indices: 31658122--31658148 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31658112 CCAATACCAA
31658122 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
31658149 ATAGTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31662290 original size:18 final size:19
Alignment explanation
Indices: 31662251--31662297 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
31662241 TTAATATTTT
*
31662251 AATATTATTTTATTCATAA
1 AATAATATTTTATTCATAA
*
31662270 AATAATATTTTATT-TTAA
1 AATAATATTTTATTCATAA
31662288 AATAAT-TTTT
1 AATAATATTTT
31662298 TCACTCGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 9 0.35
19 13 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
AATAATATTTTATTCATAA
Found at i:31662856 original size:16 final size:16
Alignment explanation
Indices: 31662817--31662859 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
31662807 TTTGGTAATA
31662817 TATTTTAGATTAGTTAT
1 TATTTTA-ATTAGTTAT
*
31662834 TAGTTTAATTAGTT-T
1 TATTTTAATTAGTTAT
31662849 TAATTTTAATT
1 T-ATTTTAATT
31662860 TTAATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 15 0.65
17 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (16 bp):
TATTTTAATTAGTTAT
Found at i:31662966 original size:40 final size:40
Alignment explanation
Indices: 31662908--31662986 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
31662898 TTGTGAAAGA
* * *
31662908 CACCAATCATGACGAGGTTGAAAAGCCCATTAAGGTGAAT
1 CACCAATCATGACAAGGTTGAAAACCCCACTAAGGTGAAT
* *
31662948 CACCAATCTTGGCAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCATGACAAGGTTGAAAACCCCACTAAGGTGAA
31662987 AAATATCGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAATCATGACAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:31672598 original size:20 final size:19
Alignment explanation
Indices: 31672562--31672600 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
31672552 GTTATTTTAA
*
31672562 TTTAATTTTCATATAAATT
1 TTTAATTTTAATATAAATT
*
31672581 TTTATATTTTAATGTAAATT
1 TTTA-ATTTTAATATAAATT
31672601 ACATCTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTAATTTTAATATAAATT
Found at i:31677043 original size:722 final size:716
Alignment explanation
Indices: 31675765--31677131 Score: 1925
Period size: 722 Copynumber: 1.9 Consensus size: 716
31675755 CAATCTCTGG
* * * * *
31675765 CAAGATTTTTGCCCTTTTTTTTTCTCTCAATAGTGCAATTTTAGACCAGGACTTAATTTGCTGTC
1 CAAGATTTTTGCCCTTTTTTTTTCTCTCAATAGTCCAATCTCAGACCAAGACATAATTTGCTGTC
* * * *
31675830 TCTCATTTTCTTGGCCTCAACACTGGAAACACTGTTAGAACAATCTCCTGACTTGTTGTGCAAGT
66 TCCCATTTTCTTGGCCTCAACACTGGAAACACTATTAGAACAATCTCCTGACTTCTTGTGCAAGC
31675895 TGCAAGTGAGTTGAGATCCAAAAGTTTCCGGCCGTTTATGGAAATCAATTTATGGTAAACGGTCA
131 TGCAAGTGAGTTGAGATCCAAAAGTTTCCGGCCGTTTATGGAAATCAATTTATGGTAAACGGTCA
* *
31675960 AGTCAAGCAAATGCATTTCTACTCCAAGTACATCTGCGGGTGAATCACTCCATATACCACACCAA
196 AGTCAAGCAAATGCATTTCTACTCCAAG-ACA--TAC----GAATCACTCCATAAACCACACCAA
* * *
31676025 TTCACACCTCGAAAGAAGAAAATTCAAGAAAAATTCATTTTTCGTCGTGCCTACTTTTTCTAATT
254 TTCACACCTCGAAAGAAAAAAATTCAAGAAAAATTCATTTTTCGTCGTGCCTACTTTTTCCAAAT
* * *
31676090 CATATTAATGCCACTCTTTATCTTTTCCCAATTATAACAACTACACTTTTCTATTATTTCTTTTT
319 CATACTAATGCCACTCTTTATCTTTTCCCAATGATAACAACTACACTTTTCGATTATTTCTTTTT
* * *
31676155 AATTTTTTTTGTCTTTTCTTCATTTTATTATTGTTTAACTTATATTGAAAATATTTTATTTGATG
384 AA----TATCGTCTTTTCTTCATTTTATTATTGTTTAACTTAAATTGAAAATATTTTATTTGATG
*
31676220 TTTCAATTTTGATCCCATGCTAAAATTATTTGTTTGCCCCTCCGTTCGCTTTCTTTCTTTCATCT
445 TTTCAATTTTGATCCCATGCTAAAATTATTTGTTTGCCCCTCCATTCGCTTTCTTTCTTTCATCT
* *
31676285 TCCTTGTATATATTAGTTAAATTCATGCTCATCATCATTATAATTTTTATTTTAGTGATTTATTT
510 TCCTTGTATATATTAGTTAAATTCATGCTCATCATCATTATAA-ATTTATTATAGTGATTTA--T
* *
31676350 ACTTTCTATAATTCTTTTTTCTTTCCTTCTTTTTTATTATTGTCTATTAAATTTATAATTTTCTA
572 --TTTCTATAATT-TTTTTTCTTTCCTTC-TTTTTATTATTGTCTATTAAATTTATAACTCTCTA
31676415 TTGATTTAAATTAATTCAATAATGAAATATATTTTTACCTCAACATATATATTTTTCTCTCCTTT
633 TTGATTTAAATTAATTCAATAATGAAATATATTTTTACCTCAACATATATATTTTTCTCTCCTTT
31676480 TTATATTTTTCAATGATGA
698 TTATATTTTTCAATGATGA
31676499 CAAGATTTTTGCCCTTTTTTTCTTCTCTCAATAGTCCAATCTCAGACCAAGACATAATTTGCTGT
1 CAAGATTTTTGCCCTTTTTTT-TTCTCTCAATAGTCCAATCTCAGACCAAGACATAATTTGCTGT
* * **
31676564 CTCCCATTTTCTTGGCCTGAACATGACTGTACAA-ACTATTAGTCCAATCTCCTGACTTCTTGTG
65 CTCCCATTTTCTTGGCCTCAAC---ACTGGA-AACACTATTAGAACAATCTCCTGACTTCTTGTG
* *
31676628 CAAGCTGCAAGTGAGTTGTGATCCAAAAGTCTT-CGGCCGTCCATTTCTGGAAATCAATTTATGA
126 CAAGCTGCAAGTGAGTTGAGATCCAAAAGT-TTCCGGCCG----TTTATGGAAATCAATTTATG-
* * *
31676692 TTAAA-GGTCAAGTCAAGTAAATGCATTTCTACTCCAA-A-A-AC-AATCACTCCTTAAACCACA
185 GTAAACGGTCAAGTCAAGCAAATGCATTTCTACTCCAAGACATACGAATCACTCCATAAACCACA
* *
31676752 CCAATTCATACGTC-AGAAGAAAAAAATTCAAGAAAAATTCA-TTTTCGTCGTGCCTACTTTTTC
250 CCAATTCACACCTCGA-AAGAAAAAAATTCAAGAAAAATTCATTTTTCGTCGTGCCTACTTTTTC
** * * *
31676815 CAAATCATACTGGTGCCACTCTTTATCTTTTTCCAATGATACCAACTACTCTTTTCGA-T-TTT-
314 CAAATCATACTAATGCCACTCTTTATCTTTTCCCAATGATAACAACTACACTTTTCGATTATTTC
* *
31676877 TTTTTAA-ATCGTCTTTTCTTCTTTTTATTATTGTTTAACTTAAATTGATAATATTTTATTTGAT
379 TTTTTAATATCGTCTTTTCTTCATTTTATTATTGTTTAACTTAAATTGAAAATATTTTATTTGAT
* * *
31676941 GTTTCAATTTTGATCCCATGTTAAATTTATTT-TTTGCCCCTCCATTCTCTTTCTTTCTTTCATC
444 GTTTCAATTTTGATCCCATGCTAAAATTATTTGTTTGCCCCTCCATTCGCTTTCTTTCTTTCATC
*
31677005 TTCCTTGTATATATTAGTTAAATTCATGCTTTATCATCATTATAAATTTATTATAGTGATTTATT
509 TTCCTTGTATATATTAGTTAAATTCATGC-TCATCATCATTATAAATTTATTATAGTGATTTATT
*
31677070 TTCTATAATTTTTTTTCTTTCCTTCTTTTTATTATTGTTTATTAAATTTATAACTCTCTATT
573 TTCTATAATTTTTTTTCTTTCCTTCTTTTTATTATTGTCTATTAAATTTATAACTCTCTATT
31677132 CTTGTCCGCT
Statistics
Matches: 572, Mismatches: 48, Indels: 45
0.86 0.07 0.07
Matches are distributed among these distances:
715 34 0.06
716 15 0.03
717 11 0.02
719 1 0.00
721 75 0.13
722 96 0.17
727 7 0.01
728 3 0.01
729 1 0.00
730 71 0.12
731 53 0.09
734 21 0.04
735 58 0.10
736 1 0.00
738 65 0.11
739 5 0.01
740 1 0.00
742 50 0.09
743 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (716 bp):
CAAGATTTTTGCCCTTTTTTTTTCTCTCAATAGTCCAATCTCAGACCAAGACATAATTTGCTGTC
TCCCATTTTCTTGGCCTCAACACTGGAAACACTATTAGAACAATCTCCTGACTTCTTGTGCAAGC
TGCAAGTGAGTTGAGATCCAAAAGTTTCCGGCCGTTTATGGAAATCAATTTATGGTAAACGGTCA
AGTCAAGCAAATGCATTTCTACTCCAAGACATACGAATCACTCCATAAACCACACCAATTCACAC
CTCGAAAGAAAAAAATTCAAGAAAAATTCATTTTTCGTCGTGCCTACTTTTTCCAAATCATACTA
ATGCCACTCTTTATCTTTTCCCAATGATAACAACTACACTTTTCGATTATTTCTTTTTAATATCG
TCTTTTCTTCATTTTATTATTGTTTAACTTAAATTGAAAATATTTTATTTGATGTTTCAATTTTG
ATCCCATGCTAAAATTATTTGTTTGCCCCTCCATTCGCTTTCTTTCTTTCATCTTCCTTGTATAT
ATTAGTTAAATTCATGCTCATCATCATTATAAATTTATTATAGTGATTTATTTTCTATAATTTTT
TTTCTTTCCTTCTTTTTATTATTGTCTATTAAATTTATAACTCTCTATTGATTTAAATTAATTCA
ATAATGAAATATATTTTTACCTCAACATATATATTTTTCTCTCCTTTTTATATTTTTCAATGATG
A
Found at i:31677849 original size:100 final size:101
Alignment explanation
Indices: 31677756--31677936 Score: 264
Period size: 103 Copynumber: 1.8 Consensus size: 101
31677746 TTCTTTCCTT
* *
31677756 CTTTTTATTATTGT-TTAT-TAAATTTATAA-T-TT-TCTATTCATTTAAATTAATTCAATAATA
1 CTTTTTATTATTGTCTAATATAAATTTATAATTATTATCTATTAATTTAAATTAATTCAATAAT-
*
31677816 AAATATATTTTTACCTCAACATTTATAATTTTCTCTC
65 AAACATATTTTTACCTCAACATTTATAATTTTCTCTC
* *
31677853 CTTTTTATTATTGTCTAATATAAATTTATAATTATTAATTTATTAATTTGAATTAATTCAATAAT
1 CTTTTTATTATTGTCTAATATAAATTTATAATTATT-ATCTATTAATTTAAATTAATTCAATAAT
31677918 AAACATATTTTTACCTCAA
65 AAACATATTTTTACCTCAA
31677937 TAATAACGTA
Statistics
Matches: 73, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
97 14 0.19
98 3 0.04
99 11 0.15
100 1 0.01
101 2 0.03
102 18 0.25
103 24 0.33
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (101 bp):
CTTTTTATTATTGTCTAATATAAATTTATAATTATTATCTATTAATTTAAATTAATTCAATAATA
AACATATTTTTACCTCAACATTTATAATTTTCTCTC
Found at i:31682389 original size:55 final size:54
Alignment explanation
Indices: 31682328--31682486 Score: 138
Period size: 55 Copynumber: 2.9 Consensus size: 54
31682318 TATCGCCATG
** * *
31682328 TTGAAAAATGTAGTGTCATGCGCCATGTTCTAAAATTTAGTTGTTACACGACATA
1 TTGAAAAATGTAGTGTCACACGCCATGTT-GAAAATTTAGTTGTTACACCACATA
* * * * * *
31682383 TTGAAAAATGCAGTTTTTACACGTCATGTTGAAAATTTAGTTGTTACACCTCATG
1 TTGAAAAATGTAG-TGTCACACGCCATGTTGAAAATTTAGTTGTTACACCACATA
* * * * **
31682438 TTGAAAAAAGTAGTTGTTATATGTTATGTTGAAAATTGTAGTTGTTACA
1 TTGAAAAATGTAG-TGTCACACGCCATGTTGAAAATT-TAGTTGTTACA
31682487 TATCATGATG
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
55 64 0.74
56 22 0.26
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (54 bp):
TTGAAAAATGTAGTGTCACACGCCATGTTGAAAATTTAGTTGTTACACCACATA
Found at i:31682454 original size:28 final size:28
Alignment explanation
Indices: 31682324--31682508 Score: 158
Period size: 28 Copynumber: 6.7 Consensus size: 28
31682314 TTGTTATCGC
* ** *
31682324 CATGTTGAAAAATGTAG-TGTCATGCGC
1 CATGTTGAAAAATGTAGTTGTTACACGT
** * *
31682351 CATGTTCTAAAATTTAGTTGTTACACGA
1 CATGTTGAAAAATGTAGTTGTTACACGT
* * *
31682379 CATATTGAAAAATGCAGTTTTTACACGT
1 CATGTTGAAAAATGTAGTTGTTACACGT
* *
31682407 CATGTTG-AAAATTTAGTTGTTACACCT
1 CATGTTGAAAAATGTAGTTGTTACACGT
* * *
31682434 CATGTTGAAAAAAGTAGTTGTTATATGT
1 CATGTTGAAAAATGTAGTTGTTACACGT
* * **
31682462 TATGTTGAAAATTGTAGTTGTTACATAT
1 CATGTTGAAAAATGTAGTTGTTACACGT
* *
31682490 CATGATGAAAAATTTAGTT
1 CATGTTGAAAAATGTAGTT
31682509 ACTACCTAAC
Statistics
Matches: 123, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
27 37 0.30
28 86 0.70
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (28 bp):
CATGTTGAAAAATGTAGTTGTTACACGT
Found at i:31697814 original size:13 final size:13
Alignment explanation
Indices: 31697796--31697833 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
31697786 TACAAGTTAT
* *
31697796 AATATATATTCAA
1 AATATAAATTAAA
31697809 AATATAAATTAAA
1 AATATAAATTAAA
31697822 AATATAAATTAA
1 AATATAAATTAA
31697834 CAAGTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
AATATAAATTAAA
Found at i:31698501 original size:89 final size:90
Alignment explanation
Indices: 31698349--31698529 Score: 280
Period size: 89 Copynumber: 2.0 Consensus size: 90
31698339 AGACGTTAAC
31698349 TTAATTAAAATTATGAAAAAAATAAATAAAATAATAAAAACACATATAAAAATAAAGATATATAT
1 TTAATTAAAATTATGAAAAAAATAAATAAAATAATAAAAACACATATAAAAATAAAGATATATAT
31698414 TCTTTTTTTTACTTACTCAATTCAA
66 TCTTTTTTTTACTTACTCAATTCAA
* **
31698439 TTNAATTAAAAATTATGAAAAAAA-AAA-AAAAT-CTACCCAA-ACATATAAAAATAAAGATATA
1 TT-AATT-AAAATTATGAAAAAAATAAATAAAATAATA-AAAACACATATAAAAATAAAGATATA
31698500 TATTCTTTTTTTTACTTACTCAATTCAA
63 TATTCTTTTTTTTACTTACTCAATTCAA
31698528 TT
1 TT
31698530 TAAATTTCTT
Statistics
Matches: 85, Mismatches: 3, Indels: 7
0.89 0.03 0.07
Matches are distributed among these distances:
89 53 0.62
90 9 0.11
91 7 0.08
92 16 0.19
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.35
Consensus pattern (90 bp):
TTAATTAAAATTATGAAAAAAATAAATAAAATAATAAAAACACATATAAAAATAAAGATATATAT
TCTTTTTTTTACTTACTCAATTCAA
Found at i:31704386 original size:13 final size:13
Alignment explanation
Indices: 31704368--31704392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31704358 TTCTAGAAAA
31704368 TTTATAAAATCAT
1 TTTATAAAATCAT
31704381 TTTATAAAATCA
1 TTTATAAAATCA
31704393 CAATTTCTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:31707968 original size:27 final size:27
Alignment explanation
Indices: 31707938--31708069 Score: 102
Period size: 27 Copynumber: 4.9 Consensus size: 27
31707928 CAGCATAATA
*
31707938 TATAATAACTAAATCTTCAATATGGCG
1 TATAATAACTAAATCTTCAACATGGCG
* * * *
31707965 TATAACAACAAAATTTTTAACATGGCG
1 TATAATAACTAAATCTTCAACATGGCG
* * * *
31707992 TACAATAACTACATCTTAAACATAGCG
1 TATAATAACTAAATCTTCAACATGGCG
* * * * * *
31708019 TGTAACAGCTATATTTTCAACATGGCT
1 TATAATAACTAAATCTTCAACATGGCG
* * *
31708046 TGTAACAATTAAATCTTCAACATG
1 TATAATAACTAAATCTTCAACATG
31708070 ACATGTAACA
Statistics
Matches: 80, Mismatches: 25, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (27 bp):
TATAATAACTAAATCTTCAACATGGCG
Found at i:31708025 original size:54 final size:54
Alignment explanation
Indices: 31707941--31708044 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
31707931 CATAATATAT
* * * *
31707941 AATAACTAAATCTTCAATATGGCGTATAACAACAAAATTTTTAACATGGCGTAC
1 AATAACTAAATCTTAAACATAGCGTATAACAACAAAATTTTCAACATGGCGTAC
* * * * *
31707995 AATAACTACATCTTAAACATAGCGTGTAACAGCTATATTTTCAACATGGC
1 AATAACTAAATCTTAAACATAGCGTATAACAACAAAATTTTCAACATGGC
31708045 TTGTAACAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (54 bp):
AATAACTAAATCTTAAACATAGCGTATAACAACAAAATTTTCAACATGGCGTAC
Found at i:31708320 original size:294 final size:292
Alignment explanation
Indices: 31707791--31708372 Score: 1110
Period size: 294 Copynumber: 2.0 Consensus size: 292
31707781 TCAGAAAGCC
31707791 TTTTTCCTCAAGTCAAAATGGTTCAAATTATGGTGTGACGTGTAACAAATTTTTCATCATGACAT
1 TTTTTCCTCAAGTCAAAATGGTTCAAATTATGGTGTGACGTGTAACAAATTTTTCATCATGACAT
*
31707856 GTAATAATTAAACTTTTTAACATGATGTATAACAACTAAATCTTCAACAAAGAGTGTAACAATTA
66 GTAATAATTAAACTTTTCAACATGATGTATAACAACTAAATCTTCAACAAAGAGTGTAACAATTA
31707921 CATTTTTCAGCATAATATATAATAACTAAATCTTCAATATGGCGTATAACAACAAAATTTTTAAC
131 CATTTTTCAGCATAATATATAATAACTAAATCTTCAATATGGCGTATAACAACAAAATTTTTAAC
31707986 ATGGCGTACAATAACTACATCTTAAACATAGCGTGTAACAGCTATATTTTCAACATGGCTTGTAA
196 ATGGCGTACAATAACTACATCTTAAACATAGCGTGTAACAGCTATATTTTCAACATGGCTTGTAA
31708051 CAATTAAATCTTCAACATGACATGTAACANGACA
261 CAATTAAAT-TTCAACATGACATGTAACA-GACA
31708085 TTTTTCCTCAAGTCAAAATGGTTCAAATTATGGTGTGACGTGTAACAAATTTTTCATCATGACAT
1 TTTTTCCTCAAGTCAAAATGGTTCAAATTATGGTGTGACGTGTAACAAATTTTTCATCATGACAT
* *
31708150 GTAATAATTAAACTTTTCAACATGATGTATAACAACTAAATCTTCAACAAGGAGTGTAATAATTA
66 GTAATAATTAAACTTTTCAACATGATGTATAACAACTAAATCTTCAACAAAGAGTGTAACAATTA
31708215 CATTTTTCAGCATAATATATAATAACTAAATCTTCAATATGGCGTATAACAACAAAATTTTTAAC
131 CATTTTTCAGCATAATATATAATAACTAAATCTTCAATATGGCGTATAACAACAAAATTTTTAAC
*
31708280 ATGGCGTACAATAACTACATCTTAAACATGGCGTGTAACAGCTATATTTTCAACATGGCTTGTAA
196 ATGGCGTACAATAACTACATCTTAAACATAGCGTGTAACAGCTATATTTTCAACATGGCTTGTAA
31708345 CAATTAAATTTCAACATGACATGTAACA
261 CAATTAAATTTCAACATGACATGTAACA
31708373 ACTATATTTT
Statistics
Matches: 284, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
293 19 0.07
294 265 0.93
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (292 bp):
TTTTTCCTCAAGTCAAAATGGTTCAAATTATGGTGTGACGTGTAACAAATTTTTCATCATGACAT
GTAATAATTAAACTTTTCAACATGATGTATAACAACTAAATCTTCAACAAAGAGTGTAACAATTA
CATTTTTCAGCATAATATATAATAACTAAATCTTCAATATGGCGTATAACAACAAAATTTTTAAC
ATGGCGTACAATAACTACATCTTAAACATAGCGTGTAACAGCTATATTTTCAACATGGCTTGTAA
CAATTAAATTTCAACATGACATGTAACAGACA
Found at i:31708334 original size:27 final size:27
Alignment explanation
Indices: 31708238--31708599 Score: 250
Period size: 27 Copynumber: 13.4 Consensus size: 27
31708228 AATATATAAT
* * * *
31708238 AACTAAATCTTCAATATGGCGTATAAC
1 AACTATATTTTCAACATGGCGTGTAAC
* * * ** *
31708265 AACAAAATTTTTAACATGGCGTACAAT
1 AACTATATTTTCAACATGGCGTGTAAC
* * *
31708292 AACTACATCTTAAACATGGCGTGTAAC
1 AACTATATTTTCAACATGGCGTGTAAC
* *
31708319 AGCTATATTTTCAACATGGCTTGTAAC
1 AACTATATTTTCAACATGGCGTGTAAC
* * * *
31708346 AATTA-AATTTCAACATGACATGTAAC
1 AACTATATTTTCAACATGGCGTGTAAC
* *
31708372 AACTATATTTTTTAACATGGCGTATAAC
1 AACTATA-TTTTCAACATGGCGTGTAAC
* * *
31708400 AATTAAATTTTCAACATGACGTGTAAC
1 AACTATATTTTCAACATGGCGTGTAAC
*** *
31708427 AACTACGT-TTTTCAACATGATATATAAC
1 AACTA--TATTTTCAACATGGCGTGTAAC
* ***
31708455 AACTAAATTTTCAACATAATGTGTAAC
1 AACTATATTTTCAACATGGCGTGTAAC
* * * *
31708482 AACTACATTTTTCAATATGGAGTGCAAC
1 AACTATA-TTTTCAACATGGCGTGTAAC
* *
31708510 ACCTAAATTTTCAACATGGCGTGTAAC
1 AACTATATTTTCAACATGGCGTGTAAC
* * *
31708537 -ACATACATTTTCAACATGACGTATAAC
1 AAC-TATATTTTCAACATGGCGTGTAAC
*
31708564 AA-T-TA-TTTCTAACATAGCGTGTAAC
1 AACTATATTTTC-AACATGGCGTGTAAC
31708589 AACTATATTTT
1 AACTATATTTT
31708600 AGAACATAAT
Statistics
Matches: 261, Mismatches: 62, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
24 4 0.02
25 15 0.06
26 25 0.10
27 151 0.58
28 66 0.25
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
AACTATATTTTCAACATGGCGTGTAAC
Found at i:31708430 original size:55 final size:55
Alignment explanation
Indices: 31708135--31708599 Score: 329
Period size: 55 Copynumber: 8.6 Consensus size: 55
31708125 TGTAACAAAT
* * * * * * **
31708135 TTTTCATCATGACATGTAATAATTAAACTTTTCAACATGATGTATAACAACTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
* * * * * * **** *
31708190 TCTTCAACAAGGA-GTGTAATAATTACATTTTTCAGCATAATATATAATAACTAAA
1 TTTTCAAC-ATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
* * * * * * * * *
31708245 TCTTCAATATGGCGTATAACAACAAAATTTTT-AACATGGCGTACAATAACTACA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
* * * * * * *
31708299 TCTTAAACATGGCGTGTAACAGCTATA-TTTTCAACATGGCTTGTAACAATTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
* * *
31708353 -TTTCAACATGACATGTAACAACTATATTTTTTAACATGGCGTATAACAATTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
** ***
31708407 TTTTCAACATGACGTGTAACAACTACGTTTTTCAACATGATATATAACAACTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
* * * * * ** *
31708462 TTTTCAACATAATGTGTAACAACTACATTTTTCAATATGGAGTGCAACACCTAAA
1 TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
* * * *
31708517 TTTTCAACATGGCGTGTAAC-AC-ATACATTTTCAACATGACGTATAACAA-T-TA
1 TTTTCAACATGACGTGTAACAACTATA-TTTTTCAACATGGCGTATAACAACTAAA
31708569 -TTTCTAACAT-AGCGTGTAACAACTATATTTT
1 TTTTC-AACATGA-CGTGTAACAACTATATTTT
31708600 AGAACATAAT
Statistics
Matches: 323, Mismatches: 77, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
51 4 0.01
52 14 0.04
53 33 0.10
54 99 0.31
55 170 0.53
56 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (55 bp):
TTTTCAACATGACGTGTAACAACTATATTTTTCAACATGGCGTATAACAACTAAA
Found at i:31708588 original size:25 final size:25
Alignment explanation
Indices: 31708518--31708590 Score: 62
Period size: 25 Copynumber: 2.8 Consensus size: 25
31708508 ACACCTAAAT
31708518 TTTC-AACATGGCGTGTAACACATACA
1 TTTCTAACAT-GCGTGTAACA-ATACA
* *
31708544 TTT-TCAACATGACGTATAACAAT-TA
1 TTTCT-AACATG-CGTGTAACAATACA
31708569 TTTCTAACATAGCGTGTAACAA
1 TTTCTAACAT-GCGTGTAACAA
31708591 CTATATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 18 0.46
26 8 0.21
27 13 0.33
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (25 bp):
TTTCTAACATGCGTGTAACAATACA
Found at i:31708589 original size:217 final size:216
Alignment explanation
Indices: 31708120--31708599 Score: 504
Period size: 217 Copynumber: 2.2 Consensus size: 216
31708110 AATTATGGTG
* * * * * * * **
31708120 TGACGTGTAACAAATT--TTTCATCATGACATGTAATAATTAAACTTTTCAACATGATGTATAAC
1 TGACGTATAAC-AATTAATTTCAACATGACATGTAACAACTATATTTTTTAACATGGCGTATAAC
* * * *
31708183 AACTAAATCTTCAACAAGGAGTGTAATAATTACATTTTTCAGCATAATATATAATAACTAAATCT
65 AACTAAATCTTCAACAAGGAGTGTAACAACTACATTTTTCAACATAATATATAACAACTAAATCT
* ** * * *
31708248 TCAATATGGCGTATAACAACAAAATTTTTAACATGGCGTACAATAACTACATCTTAAACATGGCG
130 TCAACATAACGTATAACAACAAAATTTTTAACATGGAGTACAACAACTAAATCTTAAACATGGCG
*
31708313 TGTAACAGCTATATTTTCAACA
195 TGTAACAGCTACATTTTCAACA
* * *
31708335 TGGCTTGTAACAATTAAATTTCAACATGACATGTAACAACTATATTTTTTAACATGGCGTATAAC
1 TGACGTATAACAATT-AATTTCAACATGACATGTAACAACTATATTTTTTAACATGGCGTATAAC
* * * * * *
31708400 AATTAAATTTTCAAC-ATGACGTGTAACAACTACGTTTTTCAACATGATATATAACAACTAAATT
65 AACTAAATCTTCAACAAGGA-GTGTAACAACTACATTTTTCAACATAATATATAACAACTAAATC
* * * * * * * * *
31708464 TTCAACATAATGTGTAACAACTACATTTTTCAATATGGAGTGCAACACCTAAATTTTCAACATGG
129 TTCAACATAACGTATAACAACAAAATTTTT-AACATGGAGTACAACAACTAAATCTTAAACATGG
31708529 CGTGTAACA-CATACATTTTCAACA
193 CGTGTAACAGC-TACATTTTCAACA
*
31708553 TGACGTATAACAATT-ATTTCTAACAT-AGCGTGTAACAACTATATTTT
1 TGACGTATAACAATTAATTTC-AACATGA-CATGTAACAACTATATTTT
31708600 AGAACATAAT
Statistics
Matches: 217, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
214 4 0.02
215 9 0.04
216 9 0.04
217 136 0.63
218 59 0.27
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (216 bp):
TGACGTATAACAATTAATTTCAACATGACATGTAACAACTATATTTTTTAACATGGCGTATAACA
ACTAAATCTTCAACAAGGAGTGTAACAACTACATTTTTCAACATAATATATAACAACTAAATCTT
CAACATAACGTATAACAACAAAATTTTTAACATGGAGTACAACAACTAAATCTTAAACATGGCGT
GTAACAGCTACATTTTCAACA
Found at i:31710601 original size:58 final size:59
Alignment explanation
Indices: 31710508--31710622 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 59
31710498 GAGTGGAGAA
* *
31710508 AGATAGAGAAATAATAGCATGAAAGTGATATGAAATTTAAAAAATAAA-AAACTTTGTC
1 AGATAGAGAAATAATAACATGAAAGTGATACGAAATTTAAAAAATAAAGAAACTTTGTC
* * *
31710566 AGATAGAGGAATAATAACATGGAAGTGATACGAAATTTAAAACATAAAGAAACTTTG
1 AGATAGAGAAATAATAACATGAAAGTGATACGAAATTTAAAAAATAAAGAAACTTTG
31710623 CCATCAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 43 0.84
59 8 0.16
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.24
Consensus pattern (59 bp):
AGATAGAGAAATAATAACATGAAAGTGATACGAAATTTAAAAAATAAAGAAACTTTGTC
Found at i:31717858 original size:31 final size:31
Alignment explanation
Indices: 31717818--31717894 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
31717808 TACCATAAGA
* * *
31717818 ACTAAATTGAATAAAACTGTAGAGTACATGG
1 ACTAAATTGAACAAAAATGTAGAGTACAGGG
* *
31717849 ATTAAATTGAACAAAAATGTAGAGTATAGGG
1 ACTAAATTGAACAAAAATGTAGAGTACAGGG
31717880 ACTAAATTGAACAAA
1 ACTAAATTGAACAAA
31717895 GATCTCTCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (31 bp):
ACTAAATTGAACAAAAATGTAGAGTACAGGG
Found at i:31721543 original size:84 final size:84
Alignment explanation
Indices: 31721402--31721574 Score: 292
Period size: 84 Copynumber: 2.1 Consensus size: 84
31721392 CAAAGTTCTG
* * * *
31721402 GCTATTAGAGAGGCCTTCAAATTGTTTAGCACTTCAAAATGGGTAATGAACTGGTCATTTCTAAT
1 GCTATTAGAGAGGCCTTCAAATTGTTCAACACTTCAAAATGGGCAATAAACTGGTCATTTCTAAT
31721467 TGAGAGTGACTTAAACAAT
66 TGAGAGTGACTTAAACAAT
* *
31721486 GCTATTAGAGAGGCTTTCAAATTGTTCAACACTTCAAAGTGGGCAATAAACTGGTCATTTCTAAT
1 GCTATTAGAGAGGCCTTCAAATTGTTCAACACTTCAAAATGGGCAATAAACTGGTCATTTCTAAT
31721551 TGAGAGTGACTTAAACAAT
66 TGAGAGTGACTTAAACAAT
31721570 GCTAT
1 GCTAT
31721575 GGGTTGAATA
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (84 bp):
GCTATTAGAGAGGCCTTCAAATTGTTCAACACTTCAAAATGGGCAATAAACTGGTCATTTCTAAT
TGAGAGTGACTTAAACAAT
Found at i:31722417 original size:31 final size:30
Alignment explanation
Indices: 31722376--31722442 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
31722366 TTTATGTTAA
*
31722376 ATTTTATTATATTTGATGTTATTATAATT-TTG
1 ATTTTATTATAATTG-T-TT-TTATAATTATTG
*
31722408 -TTTTGTTATAATTGTTTTTATAATTATTG
1 ATTTTATTATAATTGTTTTTATAATTATTG
31722437 ATTTTA
1 ATTTTA
31722443 AATTTAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
28 8 0.27
29 5 0.17
30 5 0.17
31 12 0.40
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (30 bp):
ATTTTATTATAATTGTTTTTATAATTATTG
Found at i:31723504 original size:15 final size:15
Alignment explanation
Indices: 31723486--31723606 Score: 81
Period size: 15 Copynumber: 7.8 Consensus size: 15
31723476 AAAATAAAAT
*
31723486 AAAATAAGAAGAGAA
1 AAAAAAAGAAGAGAA
*
31723501 AAAACAAGAATGA-AA
1 AAAAAAAGAA-GAGAA
31723516 AAAAAAAG-AGAGAAA
1 AAAAAAAGAAGAG-AA
* *
31723531 GAAAAAAAGAGGTGAA
1 -AAAAAAAGAAGAGAA
31723547 AAAAAAAGAAGA-AA
1 AAAAAAAGAAGAGAA
31723561 GAAGAAAAAGAAGA-AA
1 -AA-AAAAAGAAGAGAA
*
31723577 AGGAAAAAA-AAGAAAA
1 A--AAAAAAGAAGAGAA
31723593 AGACAAAAAGAAGA
1 A-A-AAAAAGAAGA
31723607 TAAATAGAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 22
0.76 0.05 0.19
Matches are distributed among these distances:
13 2 0.02
14 3 0.03
15 39 0.44
16 37 0.42
17 7 0.08
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAAAAAGAAGAGAA
Found at i:31723516 original size:27 final size:25
Alignment explanation
Indices: 31723474--31723526 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
31723464 TTTTTGCAAA
* * *
31723474 AAAAAATAAAATAAAATAAGAAGAG
1 AAAAAACAAAATAAAAAAAAAAGAG
31723499 AAAAAACAAGAATGAAAAAAAAAAGAG
1 AAAAAACAA-AAT-AAAAAAAAAAGAG
31723526 A
1 A
31723527 GAAAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 3 0.13
27 12 0.52
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.08
Consensus pattern (25 bp):
AAAAAACAAAATAAAAAAAAAAGAG
Found at i:31723520 original size:16 final size:14
Alignment explanation
Indices: 31723471--31723593 Score: 97
Period size: 15 Copynumber: 8.3 Consensus size: 14
31723461 TATTTTTTGC
*
31723471 AAAAAAAAATAA-A
1 AAAAAAAAAGAAGA
* *
31723484 ATAAAATAAGAAGA
1 AAAAAAAAAGAAGA
*
31723498 GAAAAAACAAGAATGA
1 -AAAAAAAAAGAA-GA
31723514 AAAAAAAAAGAGAGA
1 AAAAAAAAAGA-AGA
* *
31723529 AAGAAAAAAAGAGGTG
1 AA-AAAAAAAGAAG-A
31723545 AAAAAAAAAGAAGA
1 AAAAAAAAAGAAGA
31723559 AAGAAGAAAAAGAAGA
1 AA-AA-AAAAAGAAGA
31723575 AAAGGAAAAAA-AAGA
1 AAA--AAAAAAGAAGA
31723590 AAAA
1 AAAA
31723594 GACAAAAAGA
Statistics
Matches: 90, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
13 10 0.11
14 3 0.03
15 45 0.50
16 31 0.34
17 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAAAAAAAGAAGA
Found at i:31723584 original size:32 final size:30
Alignment explanation
Indices: 31723481--31723606 Score: 105
Period size: 31 Copynumber: 4.0 Consensus size: 30
31723471 AAAAAAAAAT
* * *
31723481 AAAATAAAATAAGAAGAGAAAAAACAAGAATGA
1 AAAAAAAAAGAAGAA-AGAAGAAA-AAGAA-GA
* *
31723514 AAAAAAAAAGAGAGAAAGAA-AAAAAGAGGTG
1 AAAAAAAAAGA-AGAAAGAAGAAAAAGAAG-A
31723545 AAAAAAAAAGAAGAAAGAAGAAAAAGAAGA
1 AAAAAAAAAGAAGAAAGAAGAAAAAGAAGA
31723575 AAAGGAAAAAA-AAGAAA-AAGACAAAAAGAAGA
1 AAA--AAAAAAGAAGAAAGAAG--AAAAAGAAGA
31723607 TAAATAGAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
30 15 0.19
31 29 0.36
32 19 0.24
33 13 0.16
34 4 0.05
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.03
Consensus pattern (30 bp):
AAAAAAAAAGAAGAAAGAAGAAAAAGAAGA
Found at i:31723584 original size:34 final size:34
Alignment explanation
Indices: 31723512--31723620 Score: 100
Period size: 34 Copynumber: 3.2 Consensus size: 34
31723502 AAACAAGAAT
* ***
31723512 GAAAAAAAA-AAGAGAGAAAGAAAAA-AAGAGGTG
1 GAAAAAAAAGAAGAAAG-AAGAAAAAGAAGAAAAG
*
31723545 AAAAAAAAAGAAGAAAGAAGAAAAAGAAGAAAAG
1 GAAAAAAAAGAAGAAAGAAGAAAAAGAAGAAAAG
* *
31723579 GAAAAAAAAGAA-AAAG-ACAAAAAGAAGATAAATA
1 GAAAAAAAAGAAGAAAGAAGAAAAAGAAGA-AAA-G
31723613 GAAAAAAA
1 GAAAAAAA
31723621 CCAAAACAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
32 11 0.17
33 23 0.36
34 30 0.47
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (34 bp):
GAAAAAAAAGAAGAAAGAAGAAAAAGAAGAAAAG
Found at i:31723594 original size:16 final size:16
Alignment explanation
Indices: 31723515--31723620 Score: 76
Period size: 15 Copynumber: 6.4 Consensus size: 16
31723505 CAAGAATGAA
31723515 AAAAAAAAGAGAGAAAG
1 AAAAAAAAGAGA-AAAG
*
31723532 AAAAAAAGAGGTGAAAA-
1 AAAAAAA-A-GAGAAAAG
*
31723549 AAAAAGAAGA-AAGAAG
1 AAAAAAAAGAGAA-AAG
* *
31723565 AAAAAGAAGA-AAAGG
1 AAAAAAAAGAGAAAAG
31723580 AAAAAAAAGA-AAAAG
1 AAAAAAAAGAGAAAAG
*
31723595 ACAAAAAGAAGATAAATAG
1 A-AAAAA-AAGAGAAA-AG
31723614 AAAAAAA
1 AAAAAAA
31723621 CCAAAACAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 16
0.77 0.06 0.16
Matches are distributed among these distances:
14 2 0.03
15 19 0.25
16 18 0.24
17 18 0.24
18 12 0.16
19 6 0.08
ACGTcount: A:0.76, C:0.01, G:0.20, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAGAAAAG
Found at i:31723601 original size:24 final size:24
Alignment explanation
Indices: 31723547--31723618 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
31723537 AAGAGGTGAA
* *
31723547 AAAAAAAGAAGAAAGAAGAAAAAG
1 AAAAAAGGAAGAAAAAAGAAAAAG
31723571 AAGAAAAGGAA-AAAAAAGAAAAAG
1 AA-AAAAGGAAGAAAAAAGAAAAAG
*
31723595 ACAAAAA-GAAGATAAATAGAAAAA
1 A-AAAAAGGAAGA-AAAAAGAAAAA
31723619 AACCAAAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 3 0.07
24 20 0.49
25 18 0.44
ACGTcount: A:0.78, C:0.01, G:0.18, T:0.03
Consensus pattern (24 bp):
AAAAAAGGAAGAAAAAAGAAAAAG
Found at i:31730368 original size:17 final size:18
Alignment explanation
Indices: 31730342--31730384 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
31730332 CAAACACACT
* *
31730342 AAAATATTAA-ATCATTG
1 AAAATTTTAATATAATTG
*
31730359 AAAATTTTAATTTAATTG
1 AAAATTTTAATATAATTG
31730377 AAAATTTT
1 AAAATTTT
31730385 TCAATAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
AAAATTTTAATATAATTG
Found at i:31734442 original size:12 final size:12
Alignment explanation
Indices: 31734425--31734453 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31734415 GGAGGGCCAT
31734425 TAAAAAAATTTA
1 TAAAAAAATTTA
31734437 TAAAAAAATTTA
1 TAAAAAAATTTA
31734449 -AAAAA
1 TAAAAA
31734454 TTTATATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAAAATTTA
Found at i:31735102 original size:19 final size:19
Alignment explanation
Indices: 31735078--31735115 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31735068 CCATTTGACT
*
31735078 TATTGGAGTATGATTTGAG
1 TATTGGAATATGATTTGAG
31735097 TATTGGAATATGATTTGAG
1 TATTGGAATATGATTTGAG
31735116 GTTTAGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAATATGATTTGAG
Found at i:31740599 original size:16 final size:17
Alignment explanation
Indices: 31740574--31740606 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
31740564 ACGAGTCTTA
*
31740574 CTTTCTTAA-TATTTTT
1 CTTTCATAATTATTTTT
31740590 CTTTCATAATTATTTTT
1 CTTTCATAATTATTTTT
31740607 TAAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
CTTTCATAATTATTTTT
Found at i:31750367 original size:21 final size:24
Alignment explanation
Indices: 31750329--31750378 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 24
31750319 TAAAAGAGTG
* *
31750329 TTTTACTTGATGATGGAT-AGA-A
1 TTTTACTTGAAGAAGGATGAGATA
31750351 TTTTA-TTGAAGAAGGATGAGATA
1 TTTTACTTGAAGAAGGATGAGATA
31750374 TTTTA
1 TTTTA
31750379 GGAGGAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 8 0.33
23 6 0.25
ACGTcount: A:0.34, C:0.02, G:0.22, T:0.42
Consensus pattern (24 bp):
TTTTACTTGAAGAAGGATGAGATA
Found at i:31752233 original size:17 final size:18
Alignment explanation
Indices: 31752211--31752310 Score: 82
Period size: 17 Copynumber: 5.4 Consensus size: 18
31752201 GCGACGTCGC
31752211 CGGTTGGGGAGAGCT-GA
1 CGGTTGGGGAGAGCTCGA
*
31752228 CGGTTGGGGA-ACGACGTCGT
1 CGGTTGGGGAGA-G-C-TCGA
31752248 CGGTTGGGGAGAGC-CGA
1 CGGTTGGGGAGAGCTCGA
* * *
31752265 CCGTTAGGGGAGCAACGTCGC
1 CGGTT-GGGGAG-AGC-TCGA
31752286 CGGTTGGGGAGAG-TCGA
1 CGGTTGGGGAGAGCTCGA
31752303 CGGTTGGG
1 CGGTTGGG
31752311 TAGTAGCCGG
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
16 1 0.02
17 28 0.42
18 7 0.11
19 5 0.08
20 18 0.27
21 7 0.11
ACGTcount: A:0.16, C:0.18, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGTTGGGGAGAGCTCGA
Found at i:31752234 original size:75 final size:76
Alignment explanation
Indices: 31752138--31752310 Score: 208
Period size: 75 Copynumber: 2.3 Consensus size: 76
31752128 GACGCTGCTT
* * * * *
31752138 GTTGGGGAAAGTCGACCGTTGGGGGAGCGACACCGCCATTTAGGGAGAGCCGATCGTTA-AGGAG
1 GTTGGGGAGAGTCGACGGTTGGGGGAACGACACCGCCAGTTAGGGAGAGCCGACCGTTAGAGGAG
*
31752202 CGACGTCGCCG
66 CAACGTCGCCG
** * * * *
31752213 GTTGGGGAGAG-CTGACGGTT-GGGGAACGACGTCGTCGGTTGGGGAGAGCCGACCGTTAGGGGA
1 GTTGGGGAGAGTC-GACGGTTGGGGGAACGACACCGCCAGTTAGGGAGAGCCGACCGTTAGAGGA
31752276 GCAACGTCGCCG
65 GCAACGTCGCCG
31752288 GTTGGGGAGAGTCGACGGTTGGG
1 GTTGGGGAGAGTCGACGGTTGGG
31752311 TAGTAGCCGG
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
74 31 0.38
75 48 0.59
76 3 0.04
ACGTcount: A:0.18, C:0.20, G:0.45, T:0.17
Consensus pattern (76 bp):
GTTGGGGAGAGTCGACGGTTGGGGGAACGACACCGCCAGTTAGGGAGAGCCGACCGTTAGAGGAG
CAACGTCGCCG
Found at i:31752284 original size:38 final size:38
Alignment explanation
Indices: 31752138--31752303 Score: 174
Period size: 37 Copynumber: 4.4 Consensus size: 38
31752128 GACGCTGCTT
* * * ** *
31752138 GTTGGGGAAAGTCGACCGTTGGGGGAGCGACACCGCCA
1 GTTGGGGAGAGCCGACCGTTAGGGGAGCGACGTCGCCG
* * * *
31752176 TTTAGGGAGAGCCGATCGTTA-AGGAGCGACGTCGCCG
1 GTTGGGGAGAGCCGACCGTTAGGGGAGCGACGTCGCCG
* * * *
31752213 GTTGGGGAGAGCTGACGGTT-GGGGAACGACGTCGTCG
1 GTTGGGGAGAGCCGACCGTTAGGGGAGCGACGTCGCCG
*
31752250 GTTGGGGAGAGCCGACCGTTAGGGGAGCAACGTCGCCG
1 GTTGGGGAGAGCCGACCGTTAGGGGAGCGACGTCGCCG
*
31752288 GTTGGGGAGAGTCGAC
1 GTTGGGGAGAGCCGAC
31752304 GGTTGGGTAG
Statistics
Matches: 102, Mismatches: 24, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
37 58 0.57
38 44 0.43
ACGTcount: A:0.19, C:0.20, G:0.44, T:0.16
Consensus pattern (38 bp):
GTTGGGGAGAGCCGACCGTTAGGGGAGCGACGTCGCCG
Found at i:31765752 original size:114 final size:114
Alignment explanation
Indices: 31765547--31765968 Score: 532
Period size: 114 Copynumber: 3.7 Consensus size: 114
31765537 CAAAAAAGAA
* * * *
31765547 AAAAGGTTTCGTTTCCTCAATTTTGAGGAGTTCATTTTTAGAAGTTTCGTTGCCTCAAGCTTTGA
1 AAAA-GTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAA-CTTTGA
** * * *
31765612 GGAGTTCA-TTTTAAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTTAATTTC
64 GGAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCCTTGAGGAGTTCATTTTT
** * *
31765662 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTTAAAAGTGTCATTGCCTCAACTTTAAGG
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
*
31765727 AGTTCATTTTTAAAAGTTTCGTTGCCTCAGCCTTAAGGAGTTCATTTTT
66 AGTTCATTTTTAAAAGTTTCGTTGCCTCAGCCTTGAGGAGTTCATTTTT
** * * *
31765776 AAAAGTCCCGTTGCCTCAACTTTGAGGAGTTCA-TTTAAAGAAGTTTCATTACCTCAGCTTTGAG
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAA-AAGTTTCATTGCCTCAACTTTGAG
* *
31765840 GAGTTCATTTTTTAAAGTTCCGTTGCCTCAGCCTTGAGGAGTTCATTTTT
65 GAGTTCATTTTTAAAAGTTTCGTTGCCTCAGCCTTGAGGAGTTCATTTTT
* * *
31765890 AAAAGTTTCGTTGCCTCAGCTTT---GAGTTTATTTTT-AAAGTTTCATTTGCCTCAATTTTGAG
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAAAAGTTTCA-TTGCCTCAACTTTGAG
* *
31765951 GAGTTTATTCTTAAAAGT
65 GAGTTCATTTTTAAAAGT
31765969 GTCATTACCT
Statistics
Matches: 268, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
110 8 0.03
111 35 0.13
112 3 0.01
113 18 0.07
114 200 0.75
115 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (114 bp):
AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTTAAAAGTTTCATTGCCTCAACTTTGAGG
AGTTCATTTTTAAAAGTTTCGTTGCCTCAGCCTTGAGGAGTTCATTTTT
Found at i:31765982 original size:38 final size:38
Alignment explanation
Indices: 31765547--31765968 Score: 478
Period size: 38 Copynumber: 11.2 Consensus size: 38
31765537 CAAAAAAGAA
* *
31765547 AAAAGGTTTCGTTTCCTCAATTTTGAGGAGTTCATTTTT
1 AAAA-GTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
*
31765586 AGAAGTTTCGTTGCCTCAAGCTTTGAGGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAA-CTTTGAGGAGTTCATTTTT
** * * *
31765624 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTTAATTTC
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
**
31765662 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
* * *
31765700 AAAAGTGTCATTGCCTCAACTTTAAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
* * *
31765738 AAAAGTTTCGTTGCCTCAGCCTTAAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
** *
31765776 AAAAGTCCCGTTGCCTCAACTTTGAGGAGTTCA-TTTA
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
* * *
31765813 AAGAAGTTTCATTACCTCAGCTTTGAGGAGTTCATTTTT
1 AA-AAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
* * * *
31765852 TAAAGTTCCGTTGCCTCAGCCTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
* *
31765890 AAAAGTTTCGTTGCCTCAGCTTT---GAGTTTATTTTT
1 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
* * * *
31765925 -AAAGTTTCATTTGCCTCAATTTTGAGGAGTTTATTCTT
1 AAAAGTTTC-GTTGCCTCAACTTTGAGGAGTTCATTTTT
31765963 AAAAGT
1 AAAAGT
31765969 GTCATTACCT
Statistics
Matches: 329, Mismatches: 45, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
34 8 0.02
35 22 0.07
37 17 0.05
38 257 0.78
39 25 0.08
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (38 bp):
AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
Found at i:31766005 original size:1 final size:1
Alignment explanation
Indices: 31765999--31766070 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
31765989 AAGTTCATTT
* * * * * *** * *
31765999 AAAAAAAAAAAACAAAACAACAAAAACAAAAAAAAATAAAAAAAATGTAAAAAAACAAAAAATAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
31766064 AAAAAAA
1 AAAAAAA
31766071 CTAAACTTGG
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.86, C:0.07, G:0.01, T:0.06
Consensus pattern (1 bp):
A
Found at i:31766033 original size:9 final size:9
Alignment explanation
Indices: 31765999--31766071 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 9
31765989 AAGTTCATTT
31765999 AAAAAAAA-
1 AAAAAAAAC
31766007 AAAACAAAAC
1 AAAA-AAAAC
*
31766017 AACAAAAAC
1 AAAAAAAAC
*
31766026 AAAAAAAAAT
1 -AAAAAAAAC
*
31766036 AAAAAAAATG
1 AAAAAAAA-C
*
31766046 TAAAAAAAC
1 AAAAAAAAC
*
31766055 AAAAAATA-
1 AAAAAAAAC
31766063 AAAAAAAAC
1 AAAAAAAAC
31766072 TAAACTTGGT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 11 0.22
9 23 0.45
10 17 0.33
ACGTcount: A:0.85, C:0.08, G:0.01, T:0.05
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:31766041 original size:26 final size:25
Alignment explanation
Indices: 31765999--31766069 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 25
31765989 AAGTTCATTT
* *
31765999 AAAAAAAAAAAA-CAAAACAA-CAA
1 AAAAAAAAAAAATAAAAAAAAGCAA
*
31766022 AAACAAAAAAAAATAAAAAAAATGTAA
1 AAA-AAAAAAAAATAAAAAAAA-GCAA
*
31766049 AAAAACAAAAAATAAAAAAAA
1 AAAAAAAAAAAATAAAAAAAA
31766070 ACTAAACTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.08
24 9 0.22
25 6 0.15
26 17 0.43
27 5 0.12
ACGTcount: A:0.86, C:0.07, G:0.01, T:0.06
Consensus pattern (25 bp):
AAAAAAAAAAAATAAAAAAAAGCAA
Found at i:31766778 original size:37 final size:37
Alignment explanation
Indices: 31766712--31766898 Score: 221
Period size: 37 Copynumber: 5.1 Consensus size: 37
31766702 AGAGTGAAGA
* * *
31766712 GGGAACGACGTCGCCGGTTGGGGAGAGCCGATCGTTG
1 GGGAGCGACGCCGCCGGTTGGGGAGAGCCGACCGTTG
* * * *
31766749 AGGAGCGACACCGCCTGTTGGGGAGAGCCGATCGTTG
1 GGGAGCGACGCCGCCGGTTGGGGAGAGCCGACCGTTG
* **
31766786 GGGAGCGACGTCGCTAGTTGGGGAGAGCCGACCGTTG
1 GGGAGCGACGCCGCCGGTTGGGGAGAGCCGACCGTTG
** * *
31766823 GGGAGCGACGCCATCGGTTAGGGAGAGCCTACCGTTG
1 GGGAGCGACGCCGCCGGTTGGGGAGAGCCGACCGTTG
** *
31766860 GGGAGCGACGCCATCGGTTAGGGAGAGCCGACCGTTG
1 GGGAGCGACGCCGCCGGTTGGGGAGAGCCGACCGTTG
31766897 GG
1 GG
31766899 TAGTGGCCGG
Statistics
Matches: 131, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.18, C:0.23, G:0.44, T:0.16
Consensus pattern (37 bp):
GGGAGCGACGCCGCCGGTTGGGGAGAGCCGACCGTTG
Found at i:31767678 original size:28 final size:28
Alignment explanation
Indices: 31767646--31767720 Score: 96
Period size: 30 Copynumber: 2.6 Consensus size: 28
31767636 ATTTAACTCT
31767646 TAAAAAATACCATGATATTAATTACAAA
1 TAAAAAATACCATGATATTAATTACAAA
*
31767674 TAAAAAAAATACCATGATATTGATTACAAA
1 T--AAAAAATACCATGATATTAATTACAAA
* *
31767704 TATAATATACCGATGAT
1 TAAAAAATACC-ATGAT
31767721 GGGATGATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.22
29 5 0.12
30 27 0.66
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAAAAATACCATGATATTAATTACAAA
Done.