Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 149 of 193
Found at i:46447504 original size:867 final size:866
Alignment explanation
Indices: 46446273--46450445 Score: 5625
Period size: 867 Copynumber: 4.8 Consensus size: 866
46446263 TTGAAGAACT
* * * * * *
46446273 CTTCAGTGATTGGTTTGTACATGAAAAAAACACAAAGAGCAATTAGTGATCGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* * *
46446338 ACTAC-AATTAAAACGAAACATTTTTGTG--T-T-AACTACCTTCCCTTGTGCTGCTGCTCTTTC
66 ACT-CTAATGAAAAAGAAACATTTTTGTGTTTATGAACTACCTTCCCTTGTGCTGCTGCTCGTTC
* * **
46446398 ATTGACAATGTTGCCAATGTCTTGAATAACCCTTCACTTCCTTCCATCTGCTATTGCATTTTTCT
130 ATTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCT
* * *
46446463 GCTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTTCTTCCTTTAGGCT
195 GCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT-GGCT
* * * *
46446527 CCTTTCACAGCTTGTGCAATCACAACAGCCCCTTCAGTGATTGGTTTCTACAAGCACAAAACACA
259 CCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACACC
* * *
46446592 AAGTGCAATTAAG-GATTGCCTAATATCTGCGACCATAATGAAAAAGAAACATTTTTGTGCTTAC
324 AAGAGCAATT-AGTGATTGCCTAATATTTGCGACCATAATGAAAAAGAAACATTTTTGTGTTTAC
* * * *
46446656 TACAACTACCTTCTCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATTA
388 TAGAACTACCTTCCCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAATGTCTTGAAGAATTC
*
46446721 TTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTGTCCTAAAAAATAAGAAAGTATA
453 TTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTCTCCTAAAAAATAAGAAAGTATA
46446786 AAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCT
518 AAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCT
* * *
46446851 TCAGTGATTGGTTTCTACAGGAAAAAAACACAAAGAGCAATTAGAGATTTCCTAATATTTGTTAC
583 TCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCTAC
*
46446916 TACATTTAAAACGAAACATTTTT-TGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGACA
648 TACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGACA
* *
46446980 ATATTGCCAATGCCTTGAAGAACTCTTCGGTTCCTTCCATTTGCAATTGCATTTTTCTGCTTCAC
713 ATATTGCCAATGCCTTGAAGAACTCTTCGGTTCATTCCATCTGCAATTGCATTTTTCTGCTTCAC
* *
46447045 ATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCATTTGAGCTTCTTTCA
778 ATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCA
46447110 CAGCTTGTGCAACCACAACAGCCC
843 CAGCTTGTGCAACCACAACAGCCC
* * * *
46447134 CTTCGGAGATTGCTTTCTACAAGCAAAAAAAACCAAGAACAATTAGTGATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
*
46447199 ACTCTAATGAAAAAGAAACATTTTTGTGTTTACTGGAACTACCTTCCCTTGTGCTACTGCTCGTT
66 ACTCTAATGAAAAAGAAACATTTTTGTGTTTA-T-GAACTACCTTCCCTTGTGCTGCTGCTCGTT
* ** *
46447264 CATTGACAATGTTGCCAATGTCTTGAAGAACCCTTCACTTCCTTTCATCTGCTATTGCATTTTTC
129 CATTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * * *
46447329 TACTTCACTTCTCCT-ATAAACAAAGAAAGTATAAAAATGATTTGTCAACTTTCTTCCTTTAGGC
194 TGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT-GGC
** *
46447393 TCCTTTCACAGCTTGTGTGACTACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAC
258 TCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAC
* * * * *
46447458 AAAGTGCAATTAATGATTGCCTAATATCTGCGACCACAATGAAAAAGAAACATTTTTGTGTTTAC
323 CAAGAGCAATTAGTGATTGCCTAATATTTGCGACCATAATGAAAAAGAAACATTTTTGTGTTTAC
* *
46447523 T-GCAACTACCTTCTCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAAAGTCTTGAAGAATT
388 TAG-AACTACCTTCCCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAATGTCTTGAAGAATT
* * * *
46447587 ATTCGGTTGCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTGTCCTGAAAAATAAGAAAGTAT
452 CTTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTCTCCTAAAAAATAAGAAAGTAT
* * *
46447652 AAAAATGGTTTGTCAACTTGCTTCCTCTGAGCTCCTTTCACAGCTTGTGCAACCACAACATCCGC
517 AAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCC
*
46447717 TTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGTTA
582 TTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCTA
* *
46447782 CTACAATTAAAACGAAACATTTTTTTGTTAACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGAC
647 CTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGAC
* * * *
46447847 AATGTTGCGAATGCCTCGAAGAACTCTACGGTTCATTCCATCTGCAATTGCATTTTTCTGCTTCA
712 AATATTGCCAATGCCTTGAAGAACTCTTCGGTTCATTCCATCTGCAATTGCATTTTTCTGCTTCA
* *
46447912 CATCTCTTGAAAAACAAAGAAGGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTC
777 CATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTC
*
46447977 ACAGCTTGTGCAACCACAACAGCCG
842 ACAGCTTGTGCAACCACAACAGCCC
* * * *
46448002 CTTCTGTGATTGGTTTCTACAAG-AAAAGAACACAAAGAGCAATTAGAGATTGCCTAATATTTGT
1 CTTCGGTGATTGGTTTCTACAAGCAAAA-AACACCAAGAGCAATTAGTGATTGCCTAATATTTGC
* * * *
46448066 TAATAC-AATTAAAACGAAACATTTTT-T-TGT-T-AACTACCTTCCCTTGTGCTGCTGCTCGTT
65 TACT-CTAATGAAAAAGAAACATTTTTGTGTTTATGAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * * *
46448126 CATTGACAATGTTACGAATGCCTTGAAGAACTCTTCGGTTCCTTCCATCTGCAATTGCATTTTTC
129 CATTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* *
46448191 TGCTTCACATCTCCTGAAAAACAAAGAAGGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGC
194 TGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTG-GC
* * * *
46448256 TTCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGAGATTGCTTTCTACAAGCAAAAAAAAC
258 TCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAC
* *
46448321 CAAGAACAATTAGTGATTGCCTAATATTTGCTACTC-TAATGAAAAAGAAACATTTTTGTGTTTA
323 CAAGAGCAATTAGTGATTGCCTAATATTTGCGAC-CATAATGAAAAAGAAACATTTTTGTGTTTA
* * * * * *
46448385 ATGGAATTACCTTACCTTGTGCTGCTACT-TGTTCATTGACAAAGTTACCAATGTCTTGAAGAAT
387 CTAGAACTACCTTCCCTTGTGCTGCTGCTCT-TTCATTGACAAAGTTGCCAATGTCTTGAAGAAT
* * * * *
46448449 TCTTCGGTTCCTTACATCTGCTATTGCATTTTTCTGCTTTAATTCTCCTGAAAACA-AAGAAAGT
451 TCTTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTCTCCT-AAAAAATAAGAAAGT
* * * *
46448513 ATAAAATTGGTTTGTCAACTTGCTTCCTATGAGTTCCTTTCACAGCTTGTGCAACCAAAACAGCC
515 ATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCC
* * *
46448578 CCTTCAGTGATTGGTTTCTACCAGCAAAAAACACAAAGAGCAATTAGTGATTGCCTAATATTTGC
580 CCTTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGC
* * * *
46448643 TACTACAATCAAAACGAAACATTTTTGTGTTAACTACCTTCCC-TGTGTTGCTGCTCGTTTATTG
645 TACTACAATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTG
* * * * ** *
46448707 ACAATGTTGCCAATGTCTTCAAGAACTCTTCAGTTCATTCCATCTGTTATTGCATTTTTCTACTT
710 ACAATATTGCCAATGCCTTGAAGAACTCTTCGGTTCATTCCATCTGCAATTGCATTTTTCTGCTT
* * * **
46448772 CACTTCTTCTG-AAAACAAAGAAAGCATAAAAATTATTTGTCAACTTGCTTCCTTT-AGGCTCCT
775 CACATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGA-GCTCCT
*
46448835 TTCACAGCTTGTCCAACCACAACAGCCC
839 TTCACAGCTTGTGCAACCACAACAGCCC
** * *
46448863 CTTCACTGATTGGTTTCTACAAGCAAAAAACACCAAGAACAATTAGTGATTGCCTTATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
* *
46448928 ACTCTAATGAAAAAGAAACATTTTTGTGTTTATTGGAACTACCTTCCCTTTTGCAGCTGCTCGTT
66 ACTCTAATGAAAAAGAAACATTTTTGTGTTTA-T-GAACTACCTTCCCTTGTGCTGCTGCTCGTT
* * * * *
46448993 CATTGACAAAGTTGCAAATGTCTTGAAGAACTCTTCGGTTCCTTCAATTTCCTATTGCATTTTTC
129 CATTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* *
46449058 TGCTTCACTTTTCCTGAAAAACAAAGAAAGTA-AAAAATGGTTTGTCAGCTTGCTTCCTTTGAGC
194 TGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTG-GC
* * *
46449122 TCCGTTCACAGCTTGTGCAACCACAACAGGCCCTTCGGTGATTGGTTTCTACAAGCAAAAACCAC
258 TCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAC
* * * * * *
46449187 CAAGAACAATTAGTGATAGCCTAATATTTGCTACTATAATAAAAAAGAAACATTTTTTTGTTTAC
323 CAAGAGCAATTAGTGATTGCCTAATATTTGCGACCATAATGAAAAAGAAACATTTTTGTGTTTAC
* * *
46449252 TAGAACTACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAAAGTTACCAATGTCTTGAAGAACTC
388 TAGAACTACCTTCCCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAATGTCTTGAAGAATTC
* * * * *
46449317 TTCGGTTCTTTCCATCTGCTGTTGCATTTTTCTACTTTAATTCTCCT-GAAAATAAAGAAAGTAT
453 TTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTCTCCTAAAAAAT-AAGAAAGTAT
* * * * * * * * * * ** *
46449381 AAAAATGGCTTGTGAACTTCCTGCATTTGGGCACCATTCACAGCTTTTGCAACCAGAATGGCCCA
517 AAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCC
* * * * * * * *
46449446 TT-GGTTAATTTGTTTCTACATGCAAAAAAAAAACCAAGAGCAATAAGAGATTGTCTAATATTTG
582 TTCAG-TGATTGGTTTCTACAAG--AAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTG
* * * * *
46449510 CTACCATAATGAAAAAGAAACATTTTTGTGTTTACGGGAACTACCTTTCCTTGTGCTGCTGCTCG
644 CTACTACAATTAAAACGAAACATTTTTGTG-TTA----AA-TACCTTCCCTTGTGCTGCTGCTCG
* * * * * * * **
46449575 TTCATTGA-AAAAGTTG-CAGATGTCTTGAAGAAATATTCGATTCCTTCCATCTACTGTTGCATT
703 TTCATTGACAATA-TTGCCA-ATGCCTTGAAGAACTCTTCGGTTCATTCCATCTGCAATTGCATT
* * * * * *
46449638 TTTCTGCTTCACTTCTCCTCAAAAAAAAATAAAGAATAAAAATGGCTTGTCAACTTGCTTCCTTT
766 TTTCTGCTTCACATCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT
* * * * *
46449703 GGGCTCCTTTCATAGCCTGTGCAA-CAGAAACAGCCA
831 GAGCTCCTTTCACAGCTTGTGCAACCA-CAACAGCCC
* *
46449739 CTTCGGTGATTGGTTTCTACACGCAAAAAACACCAAGAGCAATTAGTAATTGCCTAATATTTGCT
1 CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
*
46449804 ACTATAATGAAAAAGAAACATTTTTGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGCTCGTT
66 ACTCTAATGAAAAAGAAACATTTTTGTGTTTA-T-GAACTACCTTCCCTTGTGCTGCTGCTCGTT
* *
46449869 CATTGACAAAGTTGACAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
129 CATTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTC
* * *
46449934 TGCTTCCCTTATCCTG-AAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGGTTCCTTTGGGC
194 TGCTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTT-GGC
*
46449998 TCCTTTCACAGCTTGTACAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAC
258 TCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACAC
*
46450063 CAAGAGCAATTAGTGATTGCCTAATATTTGCAACCATAATGAAAAAGAAACATTTTTGTGTTTAC
323 CAAGAGCAATTAGTGATTGCCTAATATTTGCGACCATAATGAAAAAGAAACATTTTTGTGTTTAC
* * *
46450128 TAGAACTACCTACCCTTGTGCTGCTGCTCGTTCATTGACAAAGTAGCCAATGTCTTGAAGAATTC
388 TAGAACTACCTTCCCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAATGTCTTGAAGAATTC
* * * * *
46450193 TTCGGTTCCTTCCATCTGCTATTGCACTTTTCTGCTTCCCTTATCCTGAAAACA-AAGAAAGTAT
453 TTCGGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTCTCCT-AAAAAATAAGAAAGTAT
* * * *
46450257 AAAAATGGTTTGTCAACTTGCTTCCTTTGGGCTACTTTCACAGCTTGTGCAACCACAGCAGCCGC
517 AAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCC
* * * * *
46450322 TTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCAA
582 TTCAGTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCTA
* * * * *
46450387 CTATAATGAAAAAGGAACATTTTGGTGTTTACTAGAACTACCTTCCCTTGTGCTGCTGC
647 CTACAATTAAAACGAAACATTTT--TGTGT--TA-AA-TACCTTCCCTTGTGCTGCTGC
46450446 ATACAAACAT
Statistics
Matches: 2939, Mismatches: 318, Indels: 97
0.88 0.09 0.03
Matches are distributed among these distances:
860 3 0.00
861 224 0.08
862 188 0.06
863 423 0.14
864 10 0.00
865 3 0.00
866 326 0.11
867 663 0.23
868 315 0.11
869 4 0.00
873 1 0.00
874 94 0.03
875 93 0.03
876 584 0.20
877 5 0.00
878 3 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (866 bp):
CTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAAGAGCAATTAGTGATTGCCTAATATTTGCT
ACTCTAATGAAAAAGAAACATTTTTGTGTTTATGAACTACCTTCCCTTGTGCTGCTGCTCGTTCA
TTGACAATGTTGCCAATGTCTTGAAGAACTCTTCGGTTCCTTCCATCTGCTATTGCATTTTTCTG
CTTCACTTCTCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGGCTCC
TTTCACAGCTTGTGCAACCACAACAGCCCCTTCGGTGATTGGTTTCTACAAGCAAAAAACACCAA
GAGCAATTAGTGATTGCCTAATATTTGCGACCATAATGAAAAAGAAACATTTTTGTGTTTACTAG
AACTACCTTCCCTTGTGCTGCTGCTCTTTCATTGACAAAGTTGCCAATGTCTTGAAGAATTCTTC
GGTTCCTTCCATCTGCTGTTGCATTTTTCTGCTTCACTTCTCCTAAAAAATAAGAAAGTATAAAA
ATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAGCTTGTGCAACCACAACAGCCCCTTCA
GTGATTGGTTTCTACAAGAAAAAAACACAAAGAGCAATTAGAGATTGCCTAATATTTGCTACTAC
AATTAAAACGAAACATTTTTGTGTTAAATACCTTCCCTTGTGCTGCTGCTCGTTCATTGACAATA
TTGCCAATGCCTTGAAGAACTCTTCGGTTCATTCCATCTGCAATTGCATTTTTCTGCTTCACATC
TCCTGAAAAACAAAGAAAGTATAAAAATGGTTTGTCAACTTGCTTCCTTTGAGCTCCTTTCACAG
CTTGTGCAACCACAACAGCCC
Found at i:46452842 original size:162 final size:162
Alignment explanation
Indices: 46452570--46452893 Score: 621
Period size: 162 Copynumber: 2.0 Consensus size: 162
46452560 AGATATAGAT
46452570 TTGAAATTCCATACAACCATACGGACACAAATAAAGGCAAGCCTAGGTGCATCACAATTCCTTGC
1 TTGAAATTCCATACAACCATACGGACACAAATAAAGGCAAGCCTAGGTGCATCACAATTCCTTGC
46452635 TAACTGAAGAACATCTATCACATTTTCTCTGGTAAGCCAGGCAAACAACCAGTCCAAGAAATGAA
66 TAACTGAAGAACATCTATCACATTTTCTCTGGTAAGCCAGGCAAACAACCAGTCCAAGAAATGAA
46452700 ACTAAAACCCATTAAAAAATAAAAAGACAAAC
131 ACTAAAACCCATTAAAAAATAAAAAGACAAAC
* *
46452732 TTGAAATTCCTTAGAACCATACGGACACAAATAAAGGCAAGCCTAGGTGCATCACAATTCCTTGC
1 TTGAAATTCCATACAACCATACGGACACAAATAAAGGCAAGCCTAGGTGCATCACAATTCCTTGC
*
46452797 TAACTGAAGAACATCTATCACATTTTCTCTGGTAAGCCGGGCAAACAACCAGTCCAAGAAATGAA
66 TAACTGAAGAACATCTATCACATTTTCTCTGGTAAGCCAGGCAAACAACCAGTCCAAGAAATGAA
46452862 ACTAAAACCCATTAAAAAATAAAAAGACAAAC
131 ACTAAAACCCATTAAAAAATAAAAAGACAAAC
46452894 AGAAACGGGA
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 159 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (162 bp):
TTGAAATTCCATACAACCATACGGACACAAATAAAGGCAAGCCTAGGTGCATCACAATTCCTTGC
TAACTGAAGAACATCTATCACATTTTCTCTGGTAAGCCAGGCAAACAACCAGTCCAAGAAATGAA
ACTAAAACCCATTAAAAAATAAAAAGACAAAC
Found at i:46453382 original size:34 final size:35
Alignment explanation
Indices: 46453339--46453413 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
46453329 GTTTATTTTC
*
46453339 TTCAAAA-TTTAAATTTGGTTGAAGAATCTTAAAA
1 TTCAAAATTTTAAATTTGATTGAAGAATCTTAAAA
* *
46453373 TTCAAAATTTTAAATTTGATTGAGGCATCTTAAAA
1 TTCAAAATTTTAAATTTGATTGAAGAATCTTAAAA
46453408 TTCAAA
1 TTCAAA
46453414 TTCTTGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 7 0.19
35 30 0.81
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (35 bp):
TTCAAAATTTTAAATTTGATTGAAGAATCTTAAAA
Found at i:46455645 original size:23 final size:20
Alignment explanation
Indices: 46455606--46455646 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
46455596 TCTTGAAAAC
46455606 TATATAAAATTTATATTTTA
1 TATATAAAATTTATATTTTA
46455626 TATATCAAAATATTGATATTT
1 TATAT-AAAAT-TT-ATATTT
46455647 ATGTATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 2 0.11
23 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATAAAATTTATATTTTA
Found at i:46456934 original size:68 final size:68
Alignment explanation
Indices: 46456825--46456960 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
46456815 TTTTGAAAAT
*
46456825 CCAATTTTGACCGTTTTATTGAGGACGCTCCCTCCAACTGTATTATTTTTGAAAATCCAATTGTG
1 CCAATTGTGACCGTTTTATTGAGGACGCTCCCTCCAACTGTATTATTTTTGAAAATCCAATTGTG
46456890 ACC
66 ACC
46456893 CCAATTGTGACCGTTTTATTGAGGACGCTCCCTCCAACTGTATTATTTTTGAAAATCCAATTGTG
1 CCAATTGTGACCGTTTTATTGAGGACGCTCCCTCCAACTGTATTATTTTTGAAAATCCAATTGTG
46456958 ACC
66 ACC
46456961 GTTTGATTGA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (68 bp):
CCAATTGTGACCGTTTTATTGAGGACGCTCCCTCCAACTGTATTATTTTTGAAAATCCAATTGTG
ACC
Found at i:46458472 original size:17 final size:18
Alignment explanation
Indices: 46458450--46458489 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
46458440 TTTCACTTTA
* *
46458450 TTTATTTTATTTTTGT-T
1 TTTATTTTAATTTAGTAT
46458467 TTTATTTTAATTTAGTAT
1 TTTATTTTAATTTAGTAT
46458485 TTTAT
1 TTTAT
46458490 CTCTAAACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTATTTTAATTTAGTAT
Found at i:46460522 original size:15 final size:14
Alignment explanation
Indices: 46460485--46460519 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
46460475 TGTTTGATTG
46460485 AAAATAATTTTTAA
1 AAAATAATTTTTAA
46460499 AAAATAATTTTTAA
1 AAAATAATTTTTAA
46460513 AAAATAA
1 AAAATAA
46460520 ATTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAATTTTTAA
Found at i:46460535 original size:19 final size:18
Alignment explanation
Indices: 46460492--46460537 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
46460482 TTGAAAATAA
46460492 TTTTT-AAA-AAATAATT
1 TTTTTAAAATAAATAATT
**
46460508 TTTAAAAAATAAATTAATT
1 TTTTTAAAATAAA-TAATT
46460527 TTTTTAAAATA
1 TTTTTAAAATA
46460538 TTAGATCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 3 0.13
17 3 0.13
18 3 0.13
19 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTTTAAAATAAATAATT
Found at i:46463600 original size:16 final size:16
Alignment explanation
Indices: 46463579--46463629 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
46463569 TGAATTACTG
*
46463579 ATTACAGTTTTATTCT
1 ATTACAGTTTTATTCC
*
46463595 ATTACAGTTCTATTCC
1 ATTACAGTTTTATTCC
*
46463611 ATTACAATTTTATTCC
1 ATTACAGTTTTATTCC
46463627 ATT
1 ATT
46463630 TCAACGAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (16 bp):
ATTACAGTTTTATTCC
Found at i:46464070 original size:22 final size:22
Alignment explanation
Indices: 46464042--46464116 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
46464032 TTTCAAGTAC
46464042 ATAACTAGTATTACACCATATG
1 ATAACTAGTATTACACCATATG
* ***
46464064 ATAACTACAATATT-TTTCA-AGTG
1 ATAACT--AGTATTACACCATA-TG
46464087 CATAACTAGTATTACACCATATG
1 -ATAACTAGTATTACACCATATG
46464110 ATAACTA
1 ATAACTA
46464117 CAATATCGTC
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
22 19 0.49
23 8 0.21
24 12 0.31
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (22 bp):
ATAACTAGTATTACACCATATG
Found at i:46464122 original size:46 final size:46
Alignment explanation
Indices: 46464001--46464122 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
46463991 TATTACAAAT
* * * * *
46464001 TAGTAGTATACCACATGATAACTATAATACTTTTCAAGTACATAAC
1 TAGTATTACACCATATGATAACTACAATATTTTTCAAGTACATAAC
*
46464047 TAGTATTACACCATATGATAACTACAATATTTTTCAAGTGCATAAC
1 TAGTATTACACCATATGATAACTACAATATTTTTCAAGTACATAAC
46464093 TAGTATTACACCATATGATAACTACAATAT
1 TAGTATTACACCATATGATAACTACAATAT
46464123 CGTCCAAATG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (46 bp):
TAGTATTACACCATATGATAACTACAATATTTTTCAAGTACATAAC
Found at i:46464135 original size:46 final size:46
Alignment explanation
Indices: 46464041--46464148 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
46464031 TTTTCAAGTA
** * *
46464041 CATAACTAGTATTACACCATATGATAACTACAATATTTTTCAAGTG
1 CATAACTAGTATTACACCATATGATAACTACAATATCGTCCAAATG
46464087 CATAACTAGTATTACACCATATGATAACTACAATATCGTCCAAATG
1 CATAACTAGTATTACACCATATGATAACTACAATATCGTCCAAATG
* *
46464133 CATAATTAATATTACA
1 CATAACTAGTATTACA
46464149 AAATAGTAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (46 bp):
CATAACTAGTATTACACCATATGATAACTACAATATCGTCCAAATG
Found at i:46464266 original size:159 final size:151
Alignment explanation
Indices: 46463985--46464266 Score: 370
Period size: 159 Copynumber: 1.8 Consensus size: 151
46463975 TACAAACCAC
* * *
46463985 AATTAATATTACAAATTAGTAGTATACCACATGATAACTATAATACTTTTCAAGTACATAACTAG
1 AATTAATATTACAAAATAGTAGTACACCACATGATAACTATAATACTTTTCAAGTACAGAACTAG
* * *
46464050 TATTACACCATATGATAACTACAATATTTTTCAAGTGCATAACTAGTATTACACCATATGATAAC
66 TATTACACCACATGATAACTACAATATTGTCCAAGTGCATAACTAGTATTACACCATATGATAAC
46464115 TACAATATCGTCCAAATGCAT
131 TACAATATCGTCCAAATGCAT
46464136 AATTAATATTACAAAATAGTAGTACACCACATGATAATTACAAATTAATAATA-TTATTCAAGTA
1 AATTAATATTACAAAATAGTAGTACACCACATGAT-A--AC----T-ATAATACTT-TTCAAGTA
** * *
46464200 CAGAGTTAGT-TGTACACCACATGATAAGTACAATATTGTCCAAGTGCATAACTAGTATTGCACC
57 CAGAACTAGTAT-TACACCACATGATAACTACAATATTGTCCAAGTGCATAACTAGTATTACACC
46464264 ATA
121 ATA
46464267 GGGGTGAGCA
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
151 33 0.30
152 1 0.01
154 2 0.02
158 4 0.04
159 71 0.64
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (151 bp):
AATTAATATTACAAAATAGTAGTACACCACATGATAACTATAATACTTTTCAAGTACAGAACTAG
TATTACACCACATGATAACTACAATATTGTCCAAGTGCATAACTAGTATTACACCATATGATAAC
TACAATATCGTCCAAATGCAT
Found at i:46468172 original size:26 final size:26
Alignment explanation
Indices: 46468142--46468193 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46468132 CTTCAAAGAG
46468142 ATAAGATTTATTGTTGTAGCTTCACT
1 ATAAGATTTATTGTTGTAGCTTCACT
*
46468168 ATAAGATTTGTTGTTGTAGCTTCACT
1 ATAAGATTTATTGTTGTAGCTTCACT
46468194 CTATTCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (26 bp):
ATAAGATTTATTGTTGTAGCTTCACT
Found at i:46468446 original size:114 final size:114
Alignment explanation
Indices: 46468234--46468662 Score: 565
Period size: 114 Copynumber: 3.8 Consensus size: 114
46468224 ATTCGCTATT
* * *
46468234 TGTTTTAACCCACTTCTCTGTACTTCACCAGGAAGATGAGATTTGAAGTCTCACTCCACTCTACT
1 TGTTTTGACCCACTTCTCTGTACCTCACCAAGAAGATGAGATTTGAAGTCTCACTCCACTCTACT
* * * *
46468299 GTATCCTCGAGGACGTTGAGCTCGGCTTCGTTGTTTTGATTCAACACAT
66 ATATCCTCAAGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACAC
* * * * *
46468348 TGTTTTGACCCATTTCTCTATACCTCACCAAGAATATGGGATTTGAAGTCTCACCCCACTCTACT
1 TGTTTTGACCCACTTCTCTGTACCTCACCAAGAAGATGAGATTTGAAGTCTCACTCCACTCTACT
* * * *
46468413 ATATCCTCAAAGACGTTGATCTTGACTTTGTTGTTTTGATTCAACACAC
66 ATATCCTCAAGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACAC
* * *
46468462 TGTTTTGACCCACTTCTTTGTACCTCACCAAGAAGATGAGATTTAAAGTCTCACTCCACT-TCAT
1 TGTTTTGACCCACTTCTCTGTACCTCACCAAGAAGATGAGATTTGAAGTCTCACTCCACTCT-AC
* * * *
46468526 TGTACCCTCAGGGACGTTGAGCTCGACTTCATTGTTTTGATTCAACACAC
65 TATATCCTCAAGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACAC
* * *
46468576 TGTTTTGACCCACTTTTCTGTACCTCACCAGGAAGAT-ATGATTTGAAGTCTCACTCCACTCCAC
1 TGTTTTGACCCACTTCTCTGTACCTCACCAAGAAGATGA-GATTTGAAGTCTCACTCCACTCTAC
* * *
46468640 TATAACCTCAGGGACGTTCAGCT
65 TATATCCTCAAGGACGTTGAGCT
46468663 ATGCTTTATT
Statistics
Matches: 271, Mismatches: 41, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
113 2 0.01
114 269 0.99
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (114 bp):
TGTTTTGACCCACTTCTCTGTACCTCACCAAGAAGATGAGATTTGAAGTCTCACTCCACTCTACT
ATATCCTCAAGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACAC
Found at i:46468877 original size:96 final size:96
Alignment explanation
Indices: 46468578--46468878 Score: 343
Period size: 96 Copynumber: 3.1 Consensus size: 96
46468568 CAACACACTG
* * * *
46468578 TTTTGACCCACTTTTCTGTACCTCACCAGGAAGATATGATTTGAAGTCTCACTCCACTCCACTAT
1 TTTTGACCTACTTCTCTGTACCTCACCAGGAAGATAGGATTTGAAGTCTCACTCCACTCTACTAT
* * * *
46468643 AACCTCAGGGACGTTCAGCTATGCTTTATTA
66 AACTTCAGGGACGTTGAGCTCTGCTTTGTTA
* * * *
46468674 TTTTGACCCACTTCTCTGTACCTCACTAGGAAGATGGGATTTGAAGTCTCACTCCACTCTATTAT
1 TTTTGACCTACTTCTCTGTACCTCACCAGGAAGATAGGATTTGAAGTCTCACTCCACTCTACTAT
** * * *
46468739 TTCTTCAAGGACGTTGAGCTCTACTTTGTCGA
66 AACTTCAGGGACGTTGAGCTCTGCTTTGT-TA
** *
46468771 -TTTGACCTACTTCTCTGTACCTCACCAGGAAGATAGGATTTGAAGTCTCACTTTACTCTACTGT
1 TTTTGACCTACTTCTCTGTACCTCACCAGGAAGATAGGATTTGAAGTCTCACTCCACTCTACTAT
* ** * *
46468835 AACTTTAGGGATATTGAGATCCGCTTTGTTA
66 AACTTCAGGGACGTTGAGCTCTGCTTTGTTA
* *
46468866 TTTTAATCTACTT
1 TTTTGACCTACTT
46468879 TATTGTAATT
Statistics
Matches: 169, Mismatches: 34, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
95 1 0.01
96 167 0.99
97 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (96 bp):
TTTTGACCTACTTCTCTGTACCTCACCAGGAAGATAGGATTTGAAGTCTCACTCCACTCTACTAT
AACTTCAGGGACGTTGAGCTCTGCTTTGTTA
Found at i:46469157 original size:49 final size:49
Alignment explanation
Indices: 46469076--46469316 Score: 290
Period size: 49 Copynumber: 5.0 Consensus size: 49
46469066 TCATCTTCAG
* * *
46469076 GGTATAAGATTCGTC-GTGCGGCTTCAATCTTTCCCTTCATATCTCTAA
1 GGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAA
* * * * * *
46469124 GGTATAAGGTTCGCCGTTGTGGCTTTAACCTTTCCCTTTACATCTCTAA
1 GGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAA
* * *
46469173 GGTATAAGGTTCGCCATTGTGGCTTCAATCTTTCCCTTCACATCTCTAG
1 GGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAA
* * * *
46469222 GGTATAAGATTCGCCATTGC-GCTTCAACCTATCCC-TCTACATCTTTAG
1 GGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTC-ACATCTCTAA
* *
46469270 GGTATAAGATTCGCCATTGCAGCTTTAATCTTTCCCTTCACATCTCT
1 GGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCT
46469317 TGAGTATAGG
Statistics
Matches: 167, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.01
48 55 0.33
49 108 0.65
50 2 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (49 bp):
GGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAA
Found at i:46469301 original size:97 final size:98
Alignment explanation
Indices: 46469067--46469330 Score: 334
Period size: 97 Copynumber: 2.7 Consensus size: 98
46469057 TGCTTCTCCT
* * * * *
46469067 CATCTTCAGGGTATAAGATTCGTC-GTGCGGCTTCAATCTTTCCCTTCATATCTCTAAGGTATAA
1 CATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
* * * * * *
46469131 GGTTCGCCGTTGTGGCTTTAACCTTTCCCTTTA
66 GATTCGCCATTGTCGCTTCAACCTATCCCTCTA
* * * *
46469164 CATCTCTAAGGTATAAGGTTCGCCATTGTGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
1 CATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
46469229 GATTCGCCATTG-CGCTTCAACCTATCCCTCTA
66 GATTCGCCATTGTCGCTTCAACCTATCCCTCTA
* * * * *
46469261 CATCTTTAGGGTATAAGATTCGCCATTGCAGCTTTAATCTTTCCCTTCACATCTCTTGAGTATAG
1 CATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
46469326 GATTC
66 GATTC
46469331 AATGTTTCCT
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
97 96 0.68
98 46 0.32
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (98 bp):
CATCTTTAGGGTATAAGATTCGCCATTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAA
GATTCGCCATTGTCGCTTCAACCTATCCCTCTA
Found at i:46470373 original size:32 final size:32
Alignment explanation
Indices: 46470327--46470402 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
46470317 TATCAATCAT
*
46470327 TTCAATATCAAACAAGC-TTAAAACATAATAAA
1 TTCAATATCCAACAA-CTTTAAAACATAATAAA
*
46470359 TTCAATATCCAACAACTTTAAAACATAATAAT
1 TTCAATATCCAACAACTTTAAAACATAATAAA
*
46470391 TTCAAAATCCAA
1 TTCAATATCCAA
46470403 TAAACTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 1 0.03
32 39 0.98
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAACTTTAAAACATAATAAA
Found at i:46471370 original size:28 final size:28
Alignment explanation
Indices: 46471338--46471394 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
46471328 TCAAATTGAT
*
46471338 TATCAATATCACATGAGCACAAACTAAC
1 TATCAATATCAAATGAGCACAAACTAAC
46471366 TATCAATATCAAATGAGCACAAACTAAC
1 TATCAATATCAAATGAGCACAAACTAAC
46471394 T
1 T
46471395 GTGTAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (28 bp):
TATCAATATCAAATGAGCACAAACTAAC
Found at i:46471821 original size:15 final size:16
Alignment explanation
Indices: 46471801--46471842 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
46471791 TATTTCATGT
*
46471801 TATTTTATTTTTTAAA
1 TATTTTATTTTATAAA
* *
46471817 T-TTTTAATTAATAAA
1 TATTTTATTTTATAAA
46471832 TATTTTATTTT
1 TATTTTATTTT
46471843 CAAGTTTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTTTATAAA
Found at i:46471920 original size:19 final size:20
Alignment explanation
Indices: 46471895--46471937 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 20
46471885 ATATAAATAA
46471895 AATAATAAATATATAATTATAT
1 AATAA-AAATATAT-ATTATAT
46471917 AATAAAAATATATATTATAT
1 AATAAAAATATATATTATAT
46471937 A
1 A
46471938 TCATTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.38
21 8 0.38
22 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAAAAATATATATTATAT
Found at i:46471924 original size:28 final size:30
Alignment explanation
Indices: 46471883--46471944 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
46471873 GCTATTTTAT
46471883 TTATATAAATAAAATA-ATA-AATATATAA
1 TTATATAAATAAAATATATATAATATATAA
* *
46471911 TTATAT-AATAAAAATATATATTATATATCA
1 TTATATAAAT-AAAATATATATAATATATAA
46471941 TTAT
1 TTAT
46471945 GTTGAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.10
28 12 0.41
29 3 0.10
30 11 0.38
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
TTATATAAATAAAATATATATAATATATAA
Found at i:46472281 original size:19 final size:21
Alignment explanation
Indices: 46472235--46472281 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
46472225 CTTTTAAAAA
46472235 CTTTTTTTTCTAATTTACTTC
1 CTTTTTTTTCTAATTTACTTC
* *
46472256 ATATTTTTT-T-ATTTACTTC
1 CTTTTTTTTCTAATTTACTTC
46472275 CTTTTTT
1 CTTTTTT
46472282 ACTAGTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 14 0.64
20 1 0.05
21 7 0.32
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
CTTTTTTTTCTAATTTACTTC
Found at i:46477224 original size:30 final size:30
Alignment explanation
Indices: 46477190--46477248 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46477180 TTTTAGTAAG
*
46477190 AATATA-AAAATAATTTATTGTT-AATATTTT
1 AATATATAAAAT-ATTAATT-TTAAATATTTT
46477220 AATATATAAAATATTAATTTTAAATATTT
1 AATATATAAAATATTAATTTTAAATATTT
46477249 CTAAGTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 19 0.73
31 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (30 bp):
AATATATAAAATATTAATTTTAAATATTTT
Found at i:46478952 original size:30 final size:31
Alignment explanation
Indices: 46478918--46478996 Score: 115
Period size: 30 Copynumber: 2.6 Consensus size: 31
46478908 TTTTTTAGGT
*
46478918 CCCTTAAAAGTTGATAAAAAAAATTTTGAG-
1 CCCTTAAAAGTTGATAAAAAAAATTTGGAGC
* * *
46478948 CCCTTAAAAGCTAAAAAAAAAAATTTGGAGC
1 CCCTTAAAAGTTGATAAAAAAAATTTGGAGC
46478979 CCCTTAAAAGTTGATAAA
1 CCCTTAAAAGTTGATAAA
46478997 TTTATTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 26 0.63
31 15 0.37
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (31 bp):
CCCTTAAAAGTTGATAAAAAAAATTTGGAGC
Found at i:46487807 original size:54 final size:54
Alignment explanation
Indices: 46487733--46487836 Score: 208
Period size: 54 Copynumber: 1.9 Consensus size: 54
46487723 TGTCTTCACC
46487733 AGCATTCTTTACGCAAATGCTAAATAAATACATCGTTTTACAAATATCACCACT
1 AGCATTCTTTACGCAAATGCTAAATAAATACATCGTTTTACAAATATCACCACT
46487787 AGCATTCTTTACGCAAATGCTAAATAAATACATCGTTTTACAAATATCAC
1 AGCATTCTTTACGCAAATGCTAAATAAATACATCGTTTTACAAATATCAC
46487837 AACCTACCTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AGCATTCTTTACGCAAATGCTAAATAAATACATCGTTTTACAAATATCACCACT
Found at i:46490396 original size:21 final size:21
Alignment explanation
Indices: 46490347--46490387 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
46490337 AATTCTTTAT
*
46490347 ATTATAAA--AAATTAAAATA
1 ATTATAAATTAAATAAAAATA
46490366 ATTATAAATTAAATAAAAATA
1 ATTATAAATTAAATAAAAATA
46490387 A
1 A
46490388 ATTTTAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTATAAATTAAATAAAAATA
Found at i:46497558 original size:35 final size:35
Alignment explanation
Indices: 46497506--46497574 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
46497496 CTCCCCTATT
46497506 GGGGTATTTGAAAGATAGTA-GCATTTGTGCAACA
1 GGGGTATTTGAAAGATAGTAGGCATTTGTGCAACA
*
46497540 GGGGTATTCTTAAAGATAGTAGGCATTTGTGCAAC
1 GGGGTATT-TGAAAGATAGTAGGCATTTGTGCAAC
46497575 TATTTGTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 8 0.25
35 11 0.34
36 13 0.41
ACGTcount: A:0.30, C:0.10, G:0.29, T:0.30
Consensus pattern (35 bp):
GGGGTATTTGAAAGATAGTAGGCATTTGTGCAACA
Found at i:46497872 original size:2 final size:2
Alignment explanation
Indices: 46497865--46497890 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
46497855 CAGCTTCACT
46497865 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
46497891 TATACGAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46498421 original size:12 final size:12
Alignment explanation
Indices: 46498404--46498429 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
46498394 ATATGTGTAC
46498404 ATGTATTTATAT
1 ATGTATTTATAT
46498416 ATGTATTTATAT
1 ATGTATTTATAT
46498428 AT
1 AT
46498430 TCTTCCATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTATTTATAT
Found at i:46505701 original size:23 final size:24
Alignment explanation
Indices: 46505650--46505701 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
46505640 AAAGTATTAA
* *
46505650 AATT-AAATTATAAATTTTATAAT
1 AATTAAAAATATAAATTTTATAAG
*
46505673 AA-TAAAAATATAATTTTTA-AAG
1 AATTAAAAATATAAATTTTATAAG
46505695 AATTAAA
1 AATTAAA
46505702 GTGTAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
AATTAAAAATATAAATTTTATAAG
Found at i:46509005 original size:2 final size:2
Alignment explanation
Indices: 46508998--46509036 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
46508988 GTAACTAGTG
46508998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46509037 TAGTTAACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46524217 original size:4 final size:4
Alignment explanation
Indices: 46524210--46524246 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
46524200 TTTTGGTGAA
46524210 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
46524247 CGACAAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:46538303 original size:25 final size:26
Alignment explanation
Indices: 46538254--46538304 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
46538244 TTATTAAATA
*
46538254 TTAAAAAAAATATAAATATATATATT
1 TTAAAAAAAATATAAAAATATATATT
46538280 TTAAAAAAAAT-TAAAAACTA-ATATT
1 TTAAAAAAAATATAAAAA-TATATATT
46538305 GGTGGACCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TTAAAAAAAATATAAAAATATATATT
Found at i:46548298 original size:17 final size:17
Alignment explanation
Indices: 46548272--46548306 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
46548262 GAAGAACAAG
*
46548272 TATGACTAATGCTTTAA
1 TATGAATAATGCTTTAA
46548289 TATGAATAATGCTTTAA
1 TATGAATAATGCTTTAA
46548306 T
1 T
46548307 TAATATGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (17 bp):
TATGAATAATGCTTTAA
Found at i:46554954 original size:29 final size:27
Alignment explanation
Indices: 46554922--46554987 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
46554912 ATCTGATTTG
*
46554922 AAAAAAAAAACCAAACAAATATAA-AAA
1 AAAAAAAAAAACAAACAAA-ATAACAAA
* *
46554949 GAAAAAGAAAAACAAAGAAAATAACAAA
1 -AAAAAAAAAAACAAACAAAATAACAAA
*
46554977 AATAAAAAAAA
1 AAAAAAAAAAA
46554988 TTAAGAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.82, C:0.08, G:0.05, T:0.06
Consensus pattern (27 bp):
AAAAAAAAAAACAAACAAAATAACAAA
Found at i:46555448 original size:3 final size:3
Alignment explanation
Indices: 46555440--46555467 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
46555430 GAACTATAAA
46555440 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
46555468 CTGCTTTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46565860 original size:29 final size:27
Alignment explanation
Indices: 46565819--46565872 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
46565809 TTACAATTAA
*
46565819 TTTTAAAAAAATCAACATATAATTTTT
1 TTTTAAAAAAATCAACATAAAATTTTT
46565846 TTTTCAAAAGAAATCAACATAAAATTT
1 TTTT-AAAA-AAATCAACATAAAATTT
46565873 ATCCTTGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.17
28 4 0.17
29 16 0.67
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (27 bp):
TTTTAAAAAAATCAACATAAAATTTTT
Found at i:46568516 original size:11 final size:11
Alignment explanation
Indices: 46568500--46568530 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
46568490 ACCCGAATAA
46568500 GTTGTTTTGTT
1 GTTGTTTTGTT
*
46568511 GTTGTTTCGTT
1 GTTGTTTTGTT
46568522 GTTGTTTTG
1 GTTGTTTTG
46568531 CTACCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.68
Consensus pattern (11 bp):
GTTGTTTTGTT
Found at i:46574217 original size:58 final size:58
Alignment explanation
Indices: 46574150--46574317 Score: 212
Period size: 58 Copynumber: 2.8 Consensus size: 58
46574140 TTTGGATACC
* * * *
46574150 CGGGAGCAAAATGGTAATTTTATTTGGAATTGGGTTAAAAATGGGATTTTTAGAAGTT-
1 CGGGGGCAAAATGGTAATTTT-TGTGAAATCGGGTTAAAAATGGGATTTTTAGAAGTTA
* *
46574208 CGGGGGCAAAATGATAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTTAGAAGTTA
1 CGGGGGCAAAATGGTAATTTTTGTGAAATCG-GGTTAAAAATGGGATTTTTAGAAGTTA
* **
46574267 AGGGGGCAATGTGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTT
1 CGGGGGCAAAATGGTAATTTTT-GTGAAATC-GGGTTAAAAATGGGATTTT
46574318 GGAAAGTTCG
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
57 6 0.06
58 45 0.47
59 17 0.18
60 26 0.27
61 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.33
Consensus pattern (58 bp):
CGGGGGCAAAATGGTAATTTTTGTGAAATCGGGTTAAAAATGGGATTTTTAGAAGTTA
Found at i:46574325 original size:60 final size:58
Alignment explanation
Indices: 46574181--46574317 Score: 211
Period size: 60 Copynumber: 2.3 Consensus size: 58
46574171 ATTTGGAATT
*
46574181 GGGTTAAAAATGGGATTTTTAGAAGTTCGGGGGCAAAATGATAATTTTGGTGAAATCG
1 GGGTTAAAAATGGGATTTTTAGAAGTTAGGGGGCAAAATGATAATTTTGGTGAAATCG
* ** *
46574239 AGGTTAAAAATGGGATTTTTAGAAGTTAAGGGGGCAATGTGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAATGGGATTTTTAGAAGTT-AGGGGGCAAAATGATAA-TTTTGGTGAAATCG
46574299 GGGTTAAAAATGGGATTTT
1 GGGTTAAAAATGGGATTTT
46574318 GGAAAGTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
58 26 0.37
59 13 0.18
60 32 0.45
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.33
Consensus pattern (58 bp):
GGGTTAAAAATGGGATTTTTAGAAGTTAGGGGGCAAAATGATAATTTTGGTGAAATCG
Found at i:46574377 original size:60 final size:59
Alignment explanation
Indices: 46574314--46574476 Score: 188
Period size: 60 Copynumber: 2.7 Consensus size: 59
46574304 AAAAATGGGA
* * *
46574314 TTTTGGAAAGTTCGGAGGT-AAATTCTAATTTTT-GAAAAGTTTTAGGGGGTTAAAATGTAAT
1 TTTTAGAAAGTTCGG-GGTCAAAATATAATTTTTAG-AAAGTTTT--GGGGTTAAAATGTAAT
* * *
46574375 TTTTAGAAAGTTTTGGGGTCAAAATATAATTTTTAGGAAGTTTTGGGGTCAAAATGTAAT
1 TTTTAGAAAG-TTCGGGGTCAAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATGTAAT
*
46574435 TTTTAGAAAGTTTTGGGGTCAAAATATAA-TTTTAGAAAGTTT
1 TTTTAGAAAG-TTCGGGGTCAAAATATAATTTTTAGAAAGTTT
46574477 AGGGTCTTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
59 12 0.13
60 44 0.48
61 12 0.13
62 23 0.25
63 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (59 bp):
TTTTAGAAAGTTCGGGGTCAAAATATAATTTTTAGAAAGTTTTGGGGTTAAAATGTAAT
Found at i:46574399 original size:30 final size:30
Alignment explanation
Indices: 46574339--46574476 Score: 199
Period size: 30 Copynumber: 4.6 Consensus size: 30
46574329 AGGTAAATTC
* *
46574339 TAATTTTT-GAAAAGTTTTAGGGGGTTAAAATG
1 TAATTTTTAG-AAAGTTTT--GGGGTCAAAATA
46574371 TAATTTTTAGAAAGTTTTGGGGTCAAAATA
1 TAATTTTTAGAAAGTTTTGGGGTCAAAATA
* *
46574401 TAATTTTTAGGAAGTTTTGGGGTCAAAATG
1 TAATTTTTAGAAAGTTTTGGGGTCAAAATA
46574431 TAATTTTTAGAAAGTTTTGGGGTCAAAATA
1 TAATTTTTAGAAAGTTTTGGGGTCAAAATA
46574461 TAA-TTTTAGAAAGTTT
1 TAATTTTTAGAAAGTTT
46574477 AGGGTCTTAT
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
29 13 0.13
30 69 0.70
32 16 0.16
33 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (30 bp):
TAATTTTTAGAAAGTTTTGGGGTCAAAATA
Found at i:46575211 original size:20 final size:19
Alignment explanation
Indices: 46575167--46575221 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
46575157 TGATTTCCCT
*
46575167 TCCTTTTTCTTTTCTTTTC
1 TCCTTTTTTTTTTCTTTTC
46575186 TCCTTTTTTTTTATC-TTTC
1 TCCTTTTTTTTT-TCTTTTC
* *
46575205 T-CTCTTTATTTTCTTTT
1 TCCTTTTTTTTTTCTTTT
46575222 TAAAACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 2 0.06
18 11 0.35
19 16 0.52
20 2 0.06
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.75
Consensus pattern (19 bp):
TCCTTTTTTTTTTCTTTTC
Found at i:46576317 original size:6 final size:6
Alignment explanation
Indices: 46576303--46576359 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
46576293 GACTTTTTAA
* * * *
46576303 TTAATT TTAAAT TTAAAT TCAAA- TTAAAT TTAAAC TT-AAT TAAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
46576349 TTAAAC TTAAA
1 TTAAAT TTAAA
46576360 ACAAAAGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
5 7 0.17
6 34 0.83
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:46576321 original size:17 final size:17
Alignment explanation
Indices: 46576303--46576358 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
46576293 GACTTTTTAA
46576303 TTAATTTTAAATTTAAA-
1 TTAA-TTTAAATTTAAAC
*
46576320 TTCAAATTAAATTTAAAC
1 TT-AATTTAAATTTAAAC
*
46576338 TTAATTAAAATTTAAAC
1 TTAATTTAAATTTAAAC
46576355 TTAA
1 TTAA
46576359 AACAAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 30 0.88
18 4 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAATTTAAATTTAAAC
Found at i:46576352 original size:23 final size:23
Alignment explanation
Indices: 46576301--46576359 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
46576291 TGGACTTTTT
* * *
46576301 AATTAATTTTAAATTTAAATTCA
1 AATTAAATTTAAACTTAAATTAA
46576324 AATTAAATTTAAACTT-AATTAA
1 AATTAAATTTAAACTTAAATTAA
*
46576346 AATTTAAACTTAAA
1 AA-TTAAATTTAAA
46576360 ACAAAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTAAATTTAAACTTAAATTAA
Found at i:46576372 original size:19 final size:18
Alignment explanation
Indices: 46576328--46576378 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
46576318 AATTCAAATT
**
46576328 AAATTTAAACTT-AATTA
1 AAATTTAAACTTAAAACA
46576345 AAATTTAAACTTAAAACA
1 AAATTTAAACTTAAAACA
46576363 AAAGTTTAAACTTAAA
1 AAA-TTTAAACTTAAA
46576379 CTAAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.40
18 6 0.20
19 12 0.40
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTTAAACTTAAAACA
Found at i:46579444 original size:31 final size:31
Alignment explanation
Indices: 46579409--46579471 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
46579399 CTCGAGTTGG
*
46579409 TTTTATATTATATATAGATGAGAAGGGATGA
1 TTTTATATTATATATAGATGAAAAGGGATGA
46579440 TTTTATATTATATATAGATGAAAAGGGATGA
1 TTTTATATTATATATAGATGAAAAGGGATGA
46579471 T
1 T
46579472 ATGAATTGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (31 bp):
TTTTATATTATATATAGATGAAAAGGGATGA
Found at i:46581542 original size:2 final size:2
Alignment explanation
Indices: 46581535--46581577 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
46581525 TGATTATGAT
46581535 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
46581577 G
1 G
46581578 TTGTAAAGGA
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:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:46588986 original size:23 final size:23
Alignment explanation
Indices: 46588908--46589079 Score: 145
Period size: 23 Copynumber: 7.5 Consensus size: 23
46588898 TATACGGAAC
* *
46588908 AAACAGAGAGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
46588930 -AACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * *
46588951 GGGCAACAAAGAGCACACACAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
* *
46588977 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
46589000 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
46589023 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* * * *
46589046 AATCAAAGAGCACGA-GACGTGCT
1 AAACAGAGAGCAC-ACAAAGTGCT
46589069 AAACAGAGAGC
1 AAACAGAGAGC
46589080 GCACTAGTGT
Statistics
Matches: 122, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
21 17 0.14
23 86 0.70
24 1 0.01
25 12 0.10
26 6 0.05
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:46589014 original size:46 final size:46
Alignment explanation
Indices: 46588957--46589079 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
46588947 TGCTGGGCAA
*
46588957 CAAAGAGCACACACAGTGCTAAACAGAGAGTACACAAAGTACTAAT
1 CAAAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
* * * * *
46589003 CAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
1 CAAAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
*
46589049 CAAAGAGCACGAGAC-GTGCTAAACAGAGAGC
1 CAAAGAGCAC-ACACAGTGCTAAACAGAGAGC
46589080 GCACTAGTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 64 0.97
47 2 0.03
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.11
Consensus pattern (46 bp):
CAAAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGTACTAAT
Found at i:46589033 original size:69 final size:66
Alignment explanation
Indices: 46588908--46589047 Score: 192
Period size: 69 Copynumber: 2.0 Consensus size: 66
46588898 TATACGGAAC
*
46588908 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAAAGAGCACACACAG
1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCT--G-AACAAAGAGCACACACAG
46588973 TGCT
63 TGCT
*
46588977 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACACA
1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAA-CAAAGAGCACACACA
46589041 GTGCT
62 GTGCT
46589046 AA
1 AA
46589048 TCAAAGAGCA
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
68 2 0.03
69 34 0.52
70 11 0.17
71 11 0.17
72 7 0.11
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (66 bp):
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAACAAAGAGCACACACAGTGC
T
Found at i:46592402 original size:21 final size:21
Alignment explanation
Indices: 46592376--46592417 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
46592366 TTTGTCAAGG
46592376 GTAAAAATGGAATTTCTAACA
1 GTAAAAATGGAATTTCTAACA
46592397 GTAAAAATGGAATTTCTAACA
1 GTAAAAATGGAATTTCTAACA
46592418 TTTTAGAGGA
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:0.10, G:0.14, T:0.29
Consensus pattern (21 bp):
GTAAAAATGGAATTTCTAACA
Found at i:46593382 original size:51 final size:51
Alignment explanation
Indices: 46593312--46593504 Score: 269
Period size: 51 Copynumber: 3.8 Consensus size: 51
46593302 CCATATAGGA
* * *
46593312 ATTCATATACTCACGATGACACTGAGTCATCGGACCTTTAATCCATCACGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGG
* ** *
46593363 ATTCATTTACTCTCGATGACACTTAGTCATCAAACCTTTAATCCATCATGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGG
* * * *
46593414 ATTCATTTACTCATGATGACACTTAGTCATCGGACCTTAAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGG
*
46593465 ATTCATTTACTCACGGTGACACTTAGTCATCGGATCCTTT
1 ATTCATTTACTCACGATGACACTTAGTCATCGGA-CCTTT
46593505 CGTTTCTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 120 0.97
52 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCATCAAGG
Found at i:46594099 original size:19 final size:18
Alignment explanation
Indices: 46594075--46594161 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 18
46594065 GCTTTCAAGA
46594075 ACAAGTAATTTCAACAATG
1 ACAAGT-ATTTCAACAATG
*
46594094 ACAAGT-TTTCTAACATTTG
1 ACAAGTATTTC-AACA-ATG
*
46594113 AC-AG-A-TTC-ACAAAG
1 ACAAGTATTTCAACAATG
46594127 AACAAGTAATTTCAACAATG
1 -ACAAGT-ATTTCAACAATG
46594147 ACAAGT-TTTCTAACA
1 ACAAGTATTTC-AACA
46594162 TTTGACAGAT
Statistics
Matches: 54, Mismatches: 4, Indels: 21
0.68 0.05 0.27
Matches are distributed among these distances:
14 1 0.02
15 5 0.09
16 2 0.04
17 11 0.20
18 11 0.20
19 19 0.35
20 5 0.09
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.29
Consensus pattern (18 bp):
ACAAGTATTTCAACAATG
Found at i:46594151 original size:53 final size:53
Alignment explanation
Indices: 46594071--46594178 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
46594061 AAAAGCTTTC
46594071 AAGAACAAGTAATTTCAACAATGACAAGTTTTCTAACATTTGACAGATTCACA
1 AAGAACAAGTAATTTCAACAATGACAAGTTTTCTAACATTTGACAGATTCACA
46594124 AAGAACAAGTAATTTCAACAATGACAAGTTTTCTAACATTTGACAGATTCACA
1 AAGAACAAGTAATTTCAACAATGACAAGTTTTCTAACATTTGACAGATTCACA
46594177 AA
1 AA
46594179 TTAGTCCCTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (53 bp):
AAGAACAAGTAATTTCAACAATGACAAGTTTTCTAACATTTGACAGATTCACA
Found at i:46602600 original size:21 final size:21
Alignment explanation
Indices: 46602575--46602628 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
46602565 TTGCTCATGT
46602575 TGTCTCGAGACACCCCTTTTA
1 TGTCTCGAGACACCCCTTTTA
46602596 TGTCTCGAGACACCCCTTTTA
1 TGTCTCGAGACACCCCTTTTA
*
46602617 TGTCTCAAGACA
1 TGTCTCGAGACA
46602629 TAGGTTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.31
Consensus pattern (21 bp):
TGTCTCGAGACACCCCTTTTA
Found at i:46606543 original size:41 final size:41
Alignment explanation
Indices: 46606486--46606581 Score: 158
Period size: 41 Copynumber: 2.3 Consensus size: 41
46606476 GAATTTTATT
46606486 TTAACAAGAATTCTAGTCA-CTCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCAGC-CAATTCTAACAATCTCCACC
* *
46606527 TTAACAAGAATTCTAGTCAGCCAATTCTAGCAATCTCCAGC
1 TTAACAAGAATTCTAGTCAGCCAATTCTAACAATCTCCACC
46606568 TTAACAAGAATTCT
1 TTAACAAGAATTCT
46606582 CTACGAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 51 0.98
42 1 0.02
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCAGCCAATTCTAACAATCTCCACC
Found at i:46609641 original size:66 final size:66
Alignment explanation
Indices: 46609535--46609671 Score: 265
Period size: 66 Copynumber: 2.1 Consensus size: 66
46609525 CAATCAACAA
*
46609535 CTAATAGAAGTAACGTAGTAAGGTTGAAATACCTTATTCTAATTAAAATAAAATAGATGACCTAT
1 CTAATAGAAGTAACGTAGTAAGGTTGAAACACCTTATTCTAATTAAAATAAAATAGATGACCTAT
46609600 T
66 T
46609601 CTAATAGAAGTAACGTAGTAAGGTTGAAACACCTTATTCTAATTAAAATAAAATAGATGACCTAT
1 CTAATAGAAGTAACGTAGTAAGGTTGAAACACCTTATTCTAATTAAAATAAAATAGATGACCTAT
46609666 T
66 T
46609667 CTAAT
1 CTAAT
46609672 TAAAATAAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (66 bp):
CTAATAGAAGTAACGTAGTAAGGTTGAAACACCTTATTCTAATTAAAATAAAATAGATGACCTAT
T
Found at i:46611713 original size:28 final size:29
Alignment explanation
Indices: 46611681--46611747 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
46611671 TCTTTATCCG
* *
46611681 TTAAATTAATGAGCAAAACAGTCCTTCC-
1 TTAAATTAATGAGCAAAACAATCCCTCCA
* * *
46611709 TTAAATGAGTGAGTAAAACAATCCCTCCA
1 TTAAATTAATGAGCAAAACAATCCCTCCA
46611738 TTAAAATTAA
1 TT-AAATTAA
46611748 ACCATTAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 23 0.77
29 2 0.07
30 5 0.17
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.28
Consensus pattern (29 bp):
TTAAATTAATGAGCAAAACAATCCCTCCA
Found at i:46617690 original size:22 final size:20
Alignment explanation
Indices: 46617663--46617705 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
46617653 ATAAAATTAT
46617663 TAAATATTAAAATAATATAATA
1 TAAATATTAAAA-AA-ATAATA
*
46617685 TAAATATTTAAAAAATAATA
1 TAAATATTAAAAAAATAATA
46617705 T
1 T
46617706 TGTGACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATATTAAAAAAATAATA
Found at i:46622765 original size:224 final size:225
Alignment explanation
Indices: 46622369--46622792 Score: 796
Period size: 224 Copynumber: 1.9 Consensus size: 225
46622359 TTGTATGACT
*
46622369 TATATATATATATATATTTAAACTTAATGGTTTCTTTTGGATGGATTCTTCACTTTTGTCAATGT
1 TATACATATATATATATTTAAACTTAATGGTTTCTTTTGGATGGATTCTTCACTTTTGTCAATGT
46622434 AACAACTCCTTGCCACTGGAACAAGGTGAATTGCAAATATTGAATATGCTCGTGGTGTTCAAATG
66 AACAACTCCTTGCCACTGGAACAAGGTGAATTGCAAATATTGAATATGCTCGTGGTGTTCAAATG
46622499 ATGGTTCCTTATCTATTGCTTCTTTGCTGGTCTGTCTTTTTGTGCATGCCTAGTTCCATGTGCTT
131 ATGGTTCCTTATCTATTGCTTCTTTGCTGGTCTGTCTTTTTGTGCATGCCTAGTTCCATGTGCTT
46622564 TAAATTTTTGCATGACTTACATATATCATA
196 TAAATTTTTGCATGACTTACATATATCATA
*
46622594 TATACATATATATATGTTTAAACTTAATGGTTTCTTTTGGATGGATTCTTCACTTTT-TCAATGT
1 TATACATATATATATATTTAAACTTAATGGTTTCTTTTGGATGGATTCTTCACTTTTGTCAATGT
*
46622658 AACAACTCCTTGCTACTGGAACAAGGTGAATTGCAAATATTGAATATGCTCGTGGTGTTCAAATG
66 AACAACTCCTTGCCACTGGAACAAGGTGAATTGCAAATATTGAATATGCTCGTGGTGTTCAAATG
* *
46622723 ATGGTTCCTTATCTATTGCTTCTTTGCTGGTCTGTCTTTTTGTGCATGCCTATTTTCATGTGCTT
131 ATGGTTCCTTATCTATTGCTTCTTTGCTGGTCTGTCTTTTTGTGCATGCCTAGTTCCATGTGCTT
46622788 TAAAT
196 TAAAT
46622793 GTTTAAACTC
Statistics
Matches: 194, Mismatches: 5, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
224 139 0.72
225 55 0.28
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (225 bp):
TATACATATATATATATTTAAACTTAATGGTTTCTTTTGGATGGATTCTTCACTTTTGTCAATGT
AACAACTCCTTGCCACTGGAACAAGGTGAATTGCAAATATTGAATATGCTCGTGGTGTTCAAATG
ATGGTTCCTTATCTATTGCTTCTTTGCTGGTCTGTCTTTTTGTGCATGCCTAGTTCCATGTGCTT
TAAATTTTTGCATGACTTACATATATCATA
Found at i:46626619 original size:17 final size:16
Alignment explanation
Indices: 46626593--46626627 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
46626583 AATTCAAAAC
*
46626593 CTCTCTTTTTCTCTCTT
1 CTCTCCTTTTCT-TCTT
46626610 CTCTCCTTTTCTTCTT
1 CTCTCCTTTTCTTCTT
46626626 CT
1 CT
46626628 TTGGCCGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (16 bp):
CTCTCCTTTTCTTCTT
Found at i:46627148 original size:3 final size:3
Alignment explanation
Indices: 46627142--46627179 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
46627132 TTTATTAAAA
*
46627142 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
46627180 AAAACTTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:46628051 original size:17 final size:17
Alignment explanation
Indices: 46628024--46628086 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
46628014 AAATATATCT
*
46628024 TAAATTT-AATTTATAA
1 TAAATTTAAATTTAAAA
46628040 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* *
46628057 TAAACTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
46628074 TAAATTTAAATTT
1 TAAATTTAAATTT
46628087 TTGGGCCCGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
16 7 0.17
17 34 0.83
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:46628809 original size:17 final size:18
Alignment explanation
Indices: 46628775--46628810 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46628765 TATCTTGTAG
*
46628775 TTAAATCAATCTTTAATT
1 TTAAATCAAACTTTAATT
46628793 TTAAATCAAAC-TTAATT
1 TTAAATCAAACTTTAATT
46628810 T
1 T
46628811 ATCTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATCAAACTTTAATT
Found at i:46638255 original size:2 final size:2
Alignment explanation
Indices: 46638248--46638311 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
46638238 TTATCTTTCA
*
46638248 CT CT CT CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46638290 CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
46638312 ATATATATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:46640927 original size:6 final size:6
Alignment explanation
Indices: 46640911--46640951 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
46640901 CAAGGTAAAC
46640911 TTTCA- TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
46640952 GTTGATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:46646584 original size:92 final size:92
Alignment explanation
Indices: 46646427--46646613 Score: 365
Period size: 92 Copynumber: 2.0 Consensus size: 92
46646417 TAACATAACA
*
46646427 TACAATCCATGTCATTCATTTAAATTCAATTACACCATTTTACTTACCTAACTATGTCAACTTTG
1 TACAATCCATGTCATTCATTTAAATTCAATTACACCATCTTACTTACCTAACTATGTCAACTTTG
46646492 CTTATCTTAGATCAACATATGCATATC
66 CTTATCTTAGATCAACATATGCATATC
46646519 TACAATCCATGTCATTCATTTAAATTCAATTACACCATCTTACTTACCTAACTATGTCAACTTTG
1 TACAATCCATGTCATTCATTTAAATTCAATTACACCATCTTACTTACCTAACTATGTCAACTTTG
46646584 CTTATCTTAGATCAACATATGCATATC
66 CTTATCTTAGATCAACATATGCATATC
46646611 TAC
1 TAC
46646614 TTATTTTGAG
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.39
Consensus pattern (92 bp):
TACAATCCATGTCATTCATTTAAATTCAATTACACCATCTTACTTACCTAACTATGTCAACTTTG
CTTATCTTAGATCAACATATGCATATC
Found at i:46648434 original size:16 final size:17
Alignment explanation
Indices: 46648413--46648446 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
46648403 ATATAATTTT
*
46648413 ATTTTTATTAA-TTTAA
1 ATTTTTATAAACTTTAA
46648429 ATTTTTATAAACTTTAA
1 ATTTTTATAAACTTTAA
46648446 A
1 A
46648447 GTAACTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTTATAAACTTTAA
Found at i:46649038 original size:22 final size:22
Alignment explanation
Indices: 46648984--46649036 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
46648974 TGACTTGGCC
46648984 TAATTCAT-TATGTTATAAAAAT
1 TAATT-ATATATGTTATAAAAAT
*
46649006 TAATTATATATGTTA-AATAAT
1 TAATTATATATGTTATAAAAAT
46649027 T-ATTATATAT
1 TAATTATATAT
46649037 ATTTATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
21 8 0.28
22 12 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TAATTATATATGTTATAAAAAT
Found at i:46649183 original size:30 final size:29
Alignment explanation
Indices: 46649147--46649205 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
46649137 AAAAAGTATA
46649147 TTTAATACAATAAAACATTTATTTATATTT
1 TTTAATACAATAAAACATTTA-TTATATTT
*
46649177 TTTAATATAATAAAACATTTATTATATTT
1 TTTAATACAATAAAACATTTATTATATTT
46649206 ATGGTAGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTAATACAATAAAACATTTATTATATTT
Found at i:46652011 original size:14 final size:15
Alignment explanation
Indices: 46651992--46652020 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
46651982 ATGATACATG
46651992 ATTGTTAC-ATATCT
1 ATTGTTACTATATCT
46652006 ATTGTTACTATATCT
1 ATTGTTACTATATCT
46652021 CGTCGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (15 bp):
ATTGTTACTATATCT
Found at i:46653609 original size:18 final size:16
Alignment explanation
Indices: 46653590--46653620 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
46653580 TAATACAAAT
46653590 TATTA-AAAAATTAAA
1 TATTATAAAAATTAAA
46653605 TATTATAAAAATTAAA
1 TATTATAAAAATTAAA
46653621 AAAAATTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTATAAAAATTAAA
Found at i:46674008 original size:16 final size:18
Alignment explanation
Indices: 46673975--46674009 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
46673965 ATTTTACTAT
46673975 AATAGCAAAAGAATGAAG
1 AATAGCAAAAGAATGAAG
46673993 AATA-CAAAAG-ATGAAG
1 AATAGCAAAAGAATGAAG
46674009 A
1 A
46674010 TAAAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 6 0.35
18 4 0.24
ACGTcount: A:0.63, C:0.06, G:0.20, T:0.11
Consensus pattern (18 bp):
AATAGCAAAAGAATGAAG
Found at i:46674670 original size:70 final size:70
Alignment explanation
Indices: 46674557--46674702 Score: 247
Period size: 70 Copynumber: 2.1 Consensus size: 70
46674547 TTAGGATCAA
*
46674557 AGTGATATACTATGTAAATATTGGAGGGCTAAATTTATCATTAGACCAATAAAAATCCAAATCAA
1 AGTGATATACTATATAAATATTGGAGGGCTAAATTTATCATTAGACCAATAAAAATCCAAATCAA
46674622 CTTTG
66 CTTTG
* * * *
46674627 AGTGATATACTATATAAATATTGGGGGGTTAAATTTATTATTAGACCAATAAAAATCCAAATCAG
1 AGTGATATACTATATAAATATTGGAGGGCTAAATTTATCATTAGACCAATAAAAATCCAAATCAA
46674692 CTTTG
66 CTTTG
46674697 AGTGAT
1 AGTGAT
46674703 CAAAATATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (70 bp):
AGTGATATACTATATAAATATTGGAGGGCTAAATTTATCATTAGACCAATAAAAATCCAAATCAA
CTTTG
Found at i:46676091 original size:6 final size:6
Alignment explanation
Indices: 46676080--46676111 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
46676070 TTATTGTCGT
*
46676080 CCATCA CCATCA CCATCA CCATCA CCACCA CC
1 CCATCA CCATCA CCATCA CCATCA CCATCA CC
46676112 GCATACACCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.56, G:0.00, T:0.12
Consensus pattern (6 bp):
CCATCA
Found at i:46682702 original size:3 final size:3
Alignment explanation
Indices: 46682694--46682729 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
46682684 GCTGTTGTAA
46682694 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46682730 CAGAGTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46689054 original size:35 final size:35
Alignment explanation
Indices: 46689008--46689078 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
46688998 ATTTAGTTGG
46689008 ATAAACCGCTGATCTCTCAAGTTTTGATCAATGGC
1 ATAAACCGCTGATCTCTCAAGTTTTGATCAATGGC
46689043 ATAAACCGCTGATCTCTCAAGTTTTGATCAATGGC
1 ATAAACCGCTGATCTCTCAAGTTTTGATCAATGGC
46689078 A
1 A
46689079 ACCCACAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (35 bp):
ATAAACCGCTGATCTCTCAAGTTTTGATCAATGGC
Found at i:46690823 original size:19 final size:19
Alignment explanation
Indices: 46690790--46690826 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46690780 AATTTGATAT
**
46690790 ATTTAATTTTTTTATTTTA
1 ATTTAATTTAATTATTTTA
46690809 ATTTAATTTAATTATTTT
1 ATTTAATTTAATTATTTT
46690827 TATTCGATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTAATTTAATTATTTTA
Found at i:46692405 original size:25 final size:25
Alignment explanation
Indices: 46692371--46692422 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
46692361 GTCCTAAACT
46692371 TGGCAATTATTCCCACATTGGGACC
1 TGGCAATTATTCCCACATTGGGACC
46692396 TGGCAATTATTCCCACATTGGGACC
1 TGGCAATTATTCCCACATTGGGACC
46692421 TG
1 TG
46692423 AACTTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (25 bp):
TGGCAATTATTCCCACATTGGGACC
Found at i:46696014 original size:12 final size:12
Alignment explanation
Indices: 46695993--46696022 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46695983 GTTACCCAAG
46695993 TGTATATATGTA
1 TGTATATATGTA
*
46696005 TGTATGTATGTA
1 TGTATATATGTA
46696017 TGTATA
1 TGTATA
46696023 CATGGGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (12 bp):
TGTATATATGTA
Found at i:46704127 original size:2 final size:2
Alignment explanation
Indices: 46704120--46704148 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
46704110 CAACAAATTA
46704120 AT 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 AT A
46704149 ACAATGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:46704491 original size:39 final size:40
Alignment explanation
Indices: 46704411--46704502 Score: 177
Period size: 39 Copynumber: 2.3 Consensus size: 40
46704401 GACAAGTCTC
46704411 TTTCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGACT
1 TTTCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGACT
46704451 TTTCAAAAGGTGTCCATCCAATATG-AAAGGGTTGTGACT
1 TTTCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGACT
46704490 TTTCAAAAGGTGT
1 TTTCAAAAGGTGT
46704503 TCATTAAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 27 0.52
40 25 0.48
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (40 bp):
TTTCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGACT
Found at i:46709447 original size:39 final size:40
Alignment explanation
Indices: 46709360--46709454 Score: 165
Period size: 39 Copynumber: 2.4 Consensus size: 40
46709350 TGGGACAAAT
46709360 CTCTTCCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGA
1 CTCTT-CAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGA
*
46709401 CTTTTCAAAAGGTGTCCATCCAATATG-AAAGGGTTGTGA
1 CTCTTCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGA
46709440 CTCTTCAAAAGGTGT
1 CTCTTCAAAAGGTGT
46709455 TCATTGAGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 26 0.50
40 22 0.42
41 4 0.08
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (40 bp):
CTCTTCAAAAGGTGTCCATCCAATATGAAAAGGGTTGTGA
Found at i:46712840 original size:18 final size:17
Alignment explanation
Indices: 46712817--46712851 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46712807 CCTCAACAAT
46712817 GGAAGGTATTGTCTCCCC
1 GGAAGGTATTGTC-CCCC
*
46712835 GGAAGGTTTTGTCCCCC
1 GGAAGGTATTGTCCCCC
46712852 TCCGTGGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (17 bp):
GGAAGGTATTGTCCCCC
Found at i:46714292 original size:24 final size:24
Alignment explanation
Indices: 46714260--46714386 Score: 191
Period size: 24 Copynumber: 5.3 Consensus size: 24
46714250 CGCATGGTAC
* * *
46714260 TCCACCATCATCTGGAGGAGGCAG
1 TCCACCATCTTATGGAGGTGGCAG
*
46714284 TCCACCATCTTATGGAGGAGGCAG
1 TCCACCATCTTATGGAGGTGGCAG
46714308 TCCACCATCTTATGGAGGTGGCAG
1 TCCACCATCTTATGGAGGTGGCAG
46714332 TCCACCATCTTATGGAGGTGGCAG
1 TCCACCATCTTATGGAGGTGGCAG
* * *
46714356 TCCCCCATCATACGGAGGTGGCAG
1 TCCACCATCTTATGGAGGTGGCAG
46714380 TCCACCA
1 TCCACCA
46714387 ACTACTCCTA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 96 1.00
ACGTcount: A:0.23, C:0.29, G:0.28, T:0.20
Consensus pattern (24 bp):
TCCACCATCTTATGGAGGTGGCAG
Found at i:46724036 original size:35 final size:35
Alignment explanation
Indices: 46723992--46724071 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
46723982 TTGAATCCAA
46723992 ATTTTAAATTTTAATTTTTAAATAAGTTTGAATTT
1 ATTTTAAATTTTAATTTTTAAATAAGTTTGAATTT
46724027 ATTTTAAATTTTAATTTTTAAATAAGTTTGAATTT
1 ATTTTAAATTTTAATTTTTAAATAAGTTTGAATTT
46724062 ATTTTAAATT
1 ATTTTAAATT
46724072 CAAATTCATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (35 bp):
ATTTTAAATTTTAATTTTTAAATAAGTTTGAATTT
Found at i:46726031 original size:59 final size:57
Alignment explanation
Indices: 46725946--46726211 Score: 254
Period size: 59 Copynumber: 4.5 Consensus size: 57
46725936 CCCTAGAGGT
* * *
46725946 CCCTAAACTATCCAAAAATT--ATATTTTAACCCTC-AAACTTCTCCAAAATTACATTTTTG
1 CCCTAAACT-TCCAAAAATTCCAT-TTTTGA-CCTCAAAACTT-T-AAAAATTACATTTTTA
* *
46726005 CCCTTAAACTTCCAAAAATTCCATTTTTGACCTCGAAACTTCTAAAATTTACATTTTTA
1 CCC-TAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTT-TAAAAATTACATTTTTA
* **
46726064 CCCCTGAACTTCCAAAAATTTTATTTTTGACCTCAAAACCTTTAAAAATTACATTTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAA-CTTTAAAAATTACATTTTTA
** *
46726123 TCCCCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTCAAAAATTACCA-TTTTA
1 -CCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTTT-AAAAATTA-CATTTTTA
**
46726182 CCCCCGAA-TGTCCAAAAATTCCATTTTTGA
1 -CCCTAAACT-TCCAAAAATTCCATTTTTGA
46726212 TCCCGATTTT
Statistics
Matches: 183, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
58 5 0.03
59 149 0.81
60 27 0.15
61 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (57 bp):
CCCTAAACTTCCAAAAATTCCATTTTTGACCTCAAAACTTTAAAAATTACATTTTTA
Found at i:46726217 original size:29 final size:28
Alignment explanation
Indices: 46725951--46726209 Score: 164
Period size: 30 Copynumber: 8.8 Consensus size: 28
46725941 GAGGTCCCTA
** * *
46725951 AACTATCCAAAAATTATATTTTAACCCTCA
1 AACT-TCCAAAAATTCCATTTTTACCC-CG
* * * **
46725981 AACTTCTCCAAAATTACATTTTTGCCCTTA
1 AACTTC-CAAAAATTCCATTTTTACCC-CG
*
46726011 AACTTCCAAAAATTCCATTTTTGACCTCG
1 AACTTCCAAAAATTCCATTTTT-ACCCCG
* * *
46726040 AAACTTCTAAAATTTACATTTTTACCCCTG
1 -AACTTCCAAAAATTCCATTTTTACCCC-G
** **
46726070 AACTTCCAAAAATTTTATTTTTGACCTCAA
1 AACTTCCAAAAATTCCATTTTT-ACC-CCG
* *
46726100 AACCTT-TAAAAATTACATTTTTATCCCCG
1 AA-CTTCCAAAAATTCCATTTTTA-CCCCG
*
46726129 AACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTT-ACCCC-G
*
46726159 AACTTTCAAAAATTACCA-TTTTACCCCCG
1 AACTTCCAAAAATT-CCATTTTTA-CCCCG
46726188 AA-TGTCCAAAAATTCCATTTTT
1 AACT-TCCAAAAATTCCATTTTT
46726210 GATCCCGATT
Statistics
Matches: 182, Mismatches: 32, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
28 7 0.04
29 76 0.42
30 92 0.51
31 7 0.04
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.36
Consensus pattern (28 bp):
AACTTCCAAAAATTCCATTTTTACCCCG
Found at i:46726243 original size:59 final size:60
Alignment explanation
Indices: 46725990--46726211 Score: 283
Period size: 59 Copynumber: 3.8 Consensus size: 60
46725980 AAACTTCTCC
* *** *
46725990 AAAATTACATTTTTGCCCTTAAACTTCCAAAAATTCCATTTTTGACCTCGAAA-CTTCTA
1 AAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCAAAACCTTCTA
* * **
46726049 AAATTTACATTTTTACCCCTGAACTTCCAAAAATTTTATTTTTGACCTCAAAACCTT-TA
1 AAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCAAAACCTTCTA
* * *
46726108 AAAATTACATTTTTATCCCCGAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTTC-A
1 AAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCAAAACCTTCTA
46726167 AAAATTACCA-TTTTACCCCCGAA-TGTCCAAAAATTCCATTTTTGA
1 AAAATTA-CATTTTTACCCCCGAACT-TCCAAAAATTCCATTTTTGA
46726212 TCCCGATTTT
Statistics
Matches: 144, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
58 1 0.01
59 138 0.96
60 5 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.36
Consensus pattern (60 bp):
AAAATTACATTTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCAAAACCTTCTA
Found at i:46726254 original size:29 final size:28
Alignment explanation
Indices: 46726166--46726257 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 28
46726156 CAAAACTTTC
* * *
46726166 AAAAATTACCATTTTACCCCCGAATGTCC
1 AAAAATTACCATTTTA-CCCCGGATATCT
* *
46726195 AAAAATT-CCATTTTTGATCCC-GATTTTTCT
1 AAAAATTACCA-TTTT-ACCCCGGA--TATCT
46726225 AAAAATTACCATTTTACCCTCGGATATCT
1 AAAAATTACCATTTTACCC-CGGATATCT
46726254 AAAA
1 AAAA
46726258 TGTCCTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
28 4 0.08
29 25 0.50
30 16 0.32
31 5 0.10
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (28 bp):
AAAAATTACCATTTTACCCCGGATATCT
Found at i:46726280 original size:59 final size:58
Alignment explanation
Indices: 46726107--46726296 Score: 163
Period size: 59 Copynumber: 3.2 Consensus size: 58
46726097 CAAAACCTTT
* ** **
46726107 AAAAATTA-CATTTTTATCCCCGAACT-TCCAAAAATTCCATTTTTGACCCCAAAACTTTC
1 AAAAATTACCA-TTTTACCCCCGAA-TATCCAAAAATTCCATTTTT-AATCCAAATTTTTC
* * **
46726166 AAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGATCCCGATTTTTC
1 AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTAATCCAAATTTTTC
* * * *
46726224 TAAAAATTACCATTTTACCCTCGGATAT-CTAAAATGTCC-TTTTTAACTCCAAATTTTCC
1 -AAAAATTACCATTTTACCCCCGAATATCCAAAAAT-TCCATTTTTAA-TCCAAATTTTTC
* *
46726283 CAAAACTACCATTT
1 AAAAATTACCATTT
46726297 CTCCCTGAAA
Statistics
Matches: 108, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
58 32 0.30
59 74 0.69
60 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCGAATATCCAAAAATTCCATTTTTAATCCAAATTTTTC
Found at i:46731539 original size:12 final size:12
Alignment explanation
Indices: 46731496--46731568 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
46731486 AGATACAATG
46731496 AAGAAAAAA-AA
1 AAGAAAAAAGAA
*
46731507 TAA-AAAGAAGAAA
1 -AAGAAAAAAG-AA
46731520 AAGAAAAAAGAA
1 AAGAAAAAAGAA
*
46731532 AAGCAAAAAACAA
1 AAG-AAAAAAGAA
*
46731545 GAAGAAAAACAAAA
1 -AAGAAAAA-AGAA
46731559 ATAGAAAAAA
1 A-AGAAAAAA
46731569 AAGGAGAGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
11 5 0.10
12 9 0.18
13 23 0.46
14 13 0.26
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.03
Consensus pattern (12 bp):
AAGAAAAAAGAA
Found at i:46732849 original size:50 final size:51
Alignment explanation
Indices: 46732722--46733028 Score: 209
Period size: 50 Copynumber: 6.1 Consensus size: 51
46732712 CAGGTTTAAC
* * * **
46732722 AGGGAAAGATTTAAGA-CGCGATGGCGGATCCAGTACCG--TGAAGAC-AA
1 AGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAAAGACAAA
*
46732769 AGGGAAAGATCTAAGATCGCAACGGTGGATCCAGTACCGCAAAAAGACAAA
1 AGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAAAGACAAA
* * ** ** * *
46732820 AGGGAAAGGTCTAAG-TCACAACGGCGGATCGTGTACC-TTAGAAGACACGA
1 AGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAAAGACA-AA
* * * * ** *
46732870 CGGGAAAGATATAAGACCGCAACGGCAGATTTAGTACCGTAAAAAGACAAA
1 AGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAAAGACAAA
* * * * * * * *
46732921 AGGGAAAGGTCTGAG-TCGCAAAGGCAGA-CCGTGTACCTC-AGAAGACACGA
1 AGGGAAAGATCTAAGATCGCAACGGCGGATCC-AGTACCGCAAAAAGACA-AA
* * ** * *
46732971 CGGGAAAGATCTAAGACCATAACGGCGGATCCAGTACCACAAAAAGATAAA
1 AGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAAAGACAAA
46733022 AGGGAAA
1 AGGGAAA
46733029 AGTCTTTATC
Statistics
Matches: 194, Mismatches: 54, Indels: 20
0.72 0.20 0.07
Matches are distributed among these distances:
47 15 0.08
48 19 0.10
49 14 0.07
50 65 0.34
51 65 0.34
52 16 0.08
ACGTcount: A:0.40, C:0.19, G:0.28, T:0.13
Consensus pattern (51 bp):
AGGGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAAAGACAAA
Found at i:46732894 original size:101 final size:101
Alignment explanation
Indices: 46732770--46733033 Score: 366
Period size: 101 Copynumber: 2.6 Consensus size: 101
46732760 TGAAGACAAA
* *
46732770 GGGAAAGATCTAAGATCGCAACGGTGGATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCTAAG
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCTAAG
* * * *
46732835 TCACAACGGCGGATCGTGTACCTTAGAAGACACGAC
66 TCACAAAGGCAGACCGTGTACCTCAGAAGACACGAC
* * ** * *
46732871 GGGAAAGATATAAGACCGCAACGGCAGATTTAGTACCGTAAAAAGACAAAAGGGAAAGGTCTGAG
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCTAAG
*
46732936 TCGCAAAGGCAGACCGTGTACCTCAGAAGACACGAC
66 TCACAAAGGCAGACCGTGTACCTCAGAAGACACGAC
** * * *
46732972 GGGAAAGATCTAAGACCATAACGGCGGATCCAGTACCACAAAAAGATAAAAGGGAAAAGTCT
1 GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCT
46733034 TTATCTCTCT
Statistics
Matches: 140, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 140 1.00
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (101 bp):
GGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCTAAG
TCACAAAGGCAGACCGTGTACCTCAGAAGACACGAC
Found at i:46733229 original size:93 final size:92
Alignment explanation
Indices: 46733028--46733255 Score: 402
Period size: 93 Copynumber: 2.5 Consensus size: 92
46733018 TAAAAGGGAA
*
46733028 AAGTCTTTATCTCTCTGAAGTTGTAGTAGGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCT
* *
46733093 TTTGAAGTTGCAGTAAAGTTGGATAGC
66 CTTGAAGTTACAGTAAAGTTGGATAGC
46733120 AAGTCTTTATCTTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAAACATCAATTCCTATC
1 AAGTCTTTATC-TCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTT-AAACATCAATTCCTATC
46733185 CTCTTGAAGTTACAGTAAAGTTGGATAGC
64 CTCTTGAAGTTACAGTAAAGTTGGATAGC
*
46733214 AAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAG
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAG
46733256 TTTCGATATC
Statistics
Matches: 130, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
92 11 0.08
93 64 0.49
94 55 0.42
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (92 bp):
AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCT
CTTGAAGTTACAGTAAAGTTGGATAGC
Found at i:46733415 original size:39 final size:38
Alignment explanation
Indices: 46733359--46733503 Score: 130
Period size: 39 Copynumber: 3.7 Consensus size: 38
46733349 ATGAAGATTC
* * *
46733359 TGATCTCTTGCCTCGAGCCAAGGGTAGATTGAAGCCATT
1 TGATCTCTTACCCCGAGCCAAGGGCAGATTGAA-CCATT
*** * * *
46733398 TGATCTCTTACCCCGAGCTTGGGGCAGATCAT-CATCAAT
1 TGATCTCTTACCCCGAGCCAAGGGCAGAT--TGAACCATT
**
46733437 CAATCTCTTACCCCGAGCCAAGGGCAGATTGTAACCATT
1 TGATCTCTTACCCCGAGCCAAGGGCAGATTG-AACCATT
* *
46733476 TGATCTTTTACCCCGAGCCTAGGGCAGA
1 TGATCTCTTACCCCGAGCCAAGGGCAGA
46733504 CCATCGTCAA
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
37 1 0.01
39 78 0.96
40 1 0.01
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
TGATCTCTTACCCCGAGCCAAGGGCAGATTGAACCATT
Found at i:46733454 original size:78 final size:78
Alignment explanation
Indices: 46733361--46733598 Score: 289
Period size: 78 Copynumber: 3.1 Consensus size: 78
46733351 GAAGATTCTG
* * * * *
46733361 ATCTCTTGCCTCGAGCCAAGGGTAGATTG-AAGCCATTTGATCTCTTACCCCGAGCTTGGGGCAG
1 ATCTCTTACCCCGAGCCAAGGGCAGATTGTAA-CCATTTGATCTTTTACCCCGAGCTTAGGGCAG
*
46733425 ATCATCATCAATCA
65 ATCATCATCAACCA
*
46733439 ATCTCTTACCCCGAGCCAAGGGCAGATTGTAACCATTTGATCTTTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCAAGGGCAGATTGTAACCATTTGATCTTTTACCCCGAGCTTAGGGCAGA
* *
46733504 CCATCGTCAACCA
66 TCATCATCAACCA
* *** * * * ** *
46733517 ATCTCTTATCCCGAGTTTAGGGCAGATTGTAACTATTCGACCTTTTACTTCGAGCTTAGAGCAGA
1 ATCTCTTACCCCGAGCCAAGGGCAGATTGTAACCATTTGATCTTTTACCCCGAGCTTAGGGCAGA
46733582 TCATCATCAACCA
66 TCATCATCAACCA
46733595 ATCT
1 ATCT
46733599 TCTATCCCGA
Statistics
Matches: 137, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
78 135 0.99
79 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCAAGGGCAGATTGTAACCATTTGATCTTTTACCCCGAGCTTAGGGCAGA
TCATCATCAACCA
Found at i:46733530 original size:39 final size:38
Alignment explanation
Indices: 46733400--46733542 Score: 121
Period size: 39 Copynumber: 3.7 Consensus size: 38
46733390 AAGCCATTTG
* * * *
46733400 ATCTCTTACCCCGAGCTTGGGGCAGATCATCATCAATCA
1 ATCTCTTACCCCGAGCCTAGGGCAGA-CATCGTCAACCA
* *
46733439 ATCTCTTACCCCGAGCCAAGGGCAG--ATTGT-AACCA
1 ATCTCTTACCCCGAGCCTAGGGCAGACATCGTCAACCA
*
46733474 TTTGATCTTTTACCCCGAGCCTAGGGCAGACCATCGTCAACCA
1 ----ATCTCTTACCCCGAGCCTAGGGCAGA-CATCGTCAACCA
* **
46733517 ATCTCTTATCCCGAGTTTAGGGCAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGA
46733543 TTGTAACTAT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
35 4 0.05
36 3 0.04
39 67 0.81
42 4 0.05
43 5 0.06
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCCTAGGGCAGACATCGTCAACCA
Found at i:46733944 original size:72 final size:72
Alignment explanation
Indices: 46733858--46734109 Score: 195
Period size: 72 Copynumber: 3.3 Consensus size: 72
46733848 ATGCGGTCAT
46733858 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCAA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCAA
*
46733923 ACCCTAG
66 ACCCTAA
* ** ** * * **
46733930 CTTCCTGATGAGATACAGAGAAGTGGACCAAATTC-GTCTTC-CTGATGAGATACATAGAAGTGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAA-TCAAAC-TCAC-GCT-CGAT--AT-G-AGCAA
* *
46733993 AT-TGAAACAAACGACCAGTCAT
58 ATCT---TCAAAC--CC--T-AA
* **
46734015 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATATGAGCAAATCTTTGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCAA
*
46734080 ACCCCAA
66 ACCCTAA
46734087 CTTCCTGATGAGATACTGAGAAG
1 CTTCCTGATGAGATACTGAGAAG
46734110 CAGGTCGAAG
Statistics
Matches: 135, Mismatches: 26, Indels: 38
0.68 0.13 0.19
Matches are distributed among these distances:
72 55 0.41
73 6 0.04
74 3 0.02
75 2 0.01
76 2 0.01
77 5 0.04
78 5 0.04
79 5 0.04
80 7 0.05
81 2 0.01
82 2 0.01
83 3 0.02
84 6 0.04
85 32 0.24
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (72 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCACGCTCGATATGAGCAAATCTTCAA
ACCCTAA
Found at i:46733955 original size:158 final size:157
Alignment explanation
Indices: 46733769--46734109 Score: 574
Period size: 157 Copynumber: 2.2 Consensus size: 157
46733759 ATAAAATGGT
46733769 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCG
1 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCG
* * *
46733834 AATTAAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACTCA
66 AATTAAAACAAACGA-CCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA
46733899 CGCTCGATATGAGCAAATCTTCAAACCC
130 CGCTCGATATGAGCAAATCTTCAAACCC
* * *
46733927 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACATAGAAGTG
1 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCG
*
46733992 AATTGAAACAAACGACCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 AATTAAAACAAACGACCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
**
46734057 GCTCGATATGAGCAAATCTTTGAACCC
131 GCTCGATATGAGCAAATCTTCAAACCC
* *
46734084 CAACTTCCTGATGAGATACTGAGAAG
1 TAGCTTCCTGATGAGATACTGAGAAG
46734110 CAGGTCGAAG
Statistics
Matches: 171, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
157 95 0.56
158 76 0.44
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (157 bp):
TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCG
AATTAAAACAAACGACCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
GCTCGATATGAGCAAATCTTCAAACCC
Found at i:46734168 original size:205 final size:205
Alignment explanation
Indices: 46733927--46734461 Score: 752
Period size: 205 Copynumber: 2.6 Consensus size: 205
46733917 CTTCAAACCC
*
46733927 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACATAGAAGTG
1 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACATAGAAGTG
* * * *
46733992 AATTGAAACAAACGA-CCAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA
66 AATCGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA
* *
46734056 CGCTCGATATGAGCAAATCTTTGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
131 CGCTCGATATGAGCAAATCTTCGAA-CCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGC
*
46734121 GATAAAATGGT
195 AATAAAATGGT
* * *
46734132 TAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCG
1 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACATAGAAGTG
* * *
46734197 AATCGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCGAATCAAGCCTA
66 AATCGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA
* * ** *
46734262 CGCTCGATGTGTGCAAATCTTCGAACCCGGCTTCCTGATGAGATACTGAGAAGCAAGTCGAAGTA
131 CGCTCGATATGAGCAAATCTTCGAACCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
46734327 ATAAAATGGT
196 ATAAAATGGT
* * * * * *
46734337 TAGCTTCTTGATAAGACACGGAGAAGTGAACCAAATCCGTCTTCTTGATGA-A-ACATAAAGAAG
1 TAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAT--AGAAG
* * * * *
46734400 TGGATCAAAACAAGTGATGCGGTCATCTTCTTGATGAGATACTAAGAAGAAGACCAAATCAA
64 TGAATCGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
46734462 TAAAACCAGA
Statistics
Matches: 294, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
203 3 0.01
204 1 0.00
205 224 0.76
206 66 0.22
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (205 bp):
TAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACATAGAAGTG
AATCGAAACAAATGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA
CGCTCGATATGAGCAAATCTTCGAACCCAACTTCCTGATGAGATACTGAGAAGCAAGTCGAAGCA
ATAAAATGGT
Found at i:46734860 original size:34 final size:34
Alignment explanation
Indices: 46734820--46734886 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
46734810 TTTTTAAATA
*
46734820 AGTTTGAATTTA-TTTTAAATTCAAATTCATTTTG
1 AGTTTGAATTTACTTTAAAATT-AAATTCATTTTG
*
46734854 AGTTTGAATTTACTTTAAAATTAAATTTATTTT
1 AGTTTGAATTTACTTTAAAATTAAATTCATTTT
46734887 TAAATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (34 bp):
AGTTTGAATTTACTTTAAAATTAAATTCATTTTG
Found at i:46734880 original size:17 final size:17
Alignment explanation
Indices: 46734860--46734895 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46734850 TTTGAGTTTG
46734860 AATTTACTTTAAAATTA
1 AATTTACTTTAAAATTA
* *
46734877 AATTTATTTTTAAATTA
1 AATTTACTTTAAAATTA
46734894 AA
1 AA
46734896 ATTAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTACTTTAAAATTA
Found at i:46736796 original size:30 final size:28
Alignment explanation
Indices: 46736752--46737010 Score: 137
Period size: 30 Copynumber: 8.8 Consensus size: 28
46736742 AGAGGTCCCT
*
46736752 AAACTGTCTAAAAATTATATTTTAACCGTC
1 AAACT-TCCAAAAATTATATTTTAACC-TC
* * ** *
46736782 AAACTTCTCTAAAATTACATTTTTGCCCCC
1 AAACTTC-CAAAAATTATA-TTTTAACCTC
* *
46736812 AAACTTCTAAAAATTCTATTTTAACCTC
1 AAACTTCCAAAAATTATATTTTAACCTC
* * *
46736840 AAAACTTCCAAAATTTACATTTTTACCCCTC
1 -AAACTTCCAAAAATTATA-TTTTA-ACCTC
*
46736871 AAACTTCCAAAAATT-TCATTTTGACCTC
1 AAACTTCCAAAAATTAT-ATTTTAACCTC
* * * *
46736899 AAAACCTCCAAAAATTACATTTTTATCCCCC
1 -AAACTTCCAAAAATTATA-TTTTA-ACCTC
* * *
46736930 AAACTTCCAAAAACTCCAT-TTTTGACCCTA
1 AAACTTCCAAAAA-T-TATATTTT-AACCTC
* * *
46736960 AAACTTTCAAAAATTACCATTTTACCCTC
1 AAACTTCCAAAAATTA-TATTTTAACCTC
* *
46736989 GAA-TGTCCAAAAATTCTATTTT
1 AAACT-TCCAAAAATTATATTTT
46737011 TGATCCCGAT
Statistics
Matches: 173, Mismatches: 40, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
28 18 0.10
29 59 0.34
30 80 0.46
31 15 0.09
32 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (28 bp):
AAACTTCCAAAAATTATATTTTAACCTC
Found at i:46736874 original size:59 final size:59
Alignment explanation
Indices: 46736748--46737010 Score: 265
Period size: 59 Copynumber: 4.5 Consensus size: 59
46736738 ACCTAGAGGT
* * * *
46736748 CCCT-AAACTGTCTAAAAATTATATTTTAACCGTC-AAACTTCTCTAAAATTACATTTTTGC
1 CCCTCAAACT-TCCAAAAATTCTATTTTAACC-TCAAAACTTC-CAAAAATTACATTTTTAC
* *
46736808 CCC-CAAACTTCTAAAAATTCTATTTTAACCTCAAAACTTCCAAAATTTACATTTTTAC
1 CCCTCAAACTTCCAAAAATTCTATTTTAACCTCAAAACTTCCAAAAATTACATTTTTAC
* *
46736866 CCCTCAAACTTCCAAAAATT-TCATTTTGACCTCAAAACCTCCAAAAATTACATTTTTATC
1 CCCTCAAACTTCCAAAAATTCT-ATTTTAACCTCAAAACTTCCAAAAATTACATTTTTA-C
* * * *
46736926 CCC-CAAACTTCCAAAAACTCCATTTTTGACC-CTAAAACTTTCAAAAATTACCA-TTTTA-
1 CCCTCAAACTTCCAAAAATTCTA-TTTTAACCTC-AAAACTTCCAAAAATTA-CATTTTTAC
*
46736984 CCCTCGAA-TGTCCAAAAATTCTATTTT
1 CCCTCAAACT-TCCAAAAATTCTATTTT
46737011 TGATCCCGAT
Statistics
Matches: 177, Mismatches: 15, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
58 29 0.16
59 106 0.60
60 40 0.23
61 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (59 bp):
CCCTCAAACTTCCAAAAATTCTATTTTAACCTCAAAACTTCCAAAAATTACATTTTTAC
Found at i:46740051 original size:22 final size:23
Alignment explanation
Indices: 46740006--46740058 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
46739996 CCTTTATCAT
*
46740006 TTTTC-TTTTTAATTGTTCATTA
1 TTTTCATTTTTAATTGTTCAATA
*
46740028 TTTTCATTTTTAATT-TTGAATA
1 TTTTCATTTTTAATTGTTCAATA
*
46740050 TTTTGATTT
1 TTTTCATTT
46740059 GGAGATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.68
Consensus pattern (23 bp):
TTTTCATTTTTAATTGTTCAATA
Found at i:46740348 original size:17 final size:17
Alignment explanation
Indices: 46740318--46740360 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
46740308 TGTTTGAATT
46740318 TTTATAA-TTT-TTTTA
1 TTTATAATTTTATTTTA
* *
46740333 TTTCTAATTTTATTTTT
1 TTTATAATTTTATTTTA
46740350 TTTATAATTTT
1 TTTATAATTTT
46740361 TAACTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 6 0.26
16 3 0.13
17 14 0.61
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATAATTTTATTTTA
Found at i:46740948 original size:32 final size:35
Alignment explanation
Indices: 46740885--46740949 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 35
46740875 GTATTAAGAA
* *
46740885 TATTATTCAAAATTCAAAATTTTGTTGTTAAATTT
1 TATTATTCAAAATTCAAAATTTTGATATTAAATTT
*
46740920 TATTATT-AAAA-T-AAAGTTTTGATATTAAAT
1 TATTATTCAAAATTCAAAATTTTGATATTAAAT
46740950 AATTTACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.56
33 1 0.04
34 4 0.15
35 7 0.26
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (35 bp):
TATTATTCAAAATTCAAAATTTTGATATTAAATTT
Found at i:46741061 original size:8 final size:8
Alignment explanation
Indices: 46741048--46741096 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
46741038 ATATTTGATA
46741048 TTAATATT
1 TTAATATT
46741056 TTAATATT
1 TTAATATT
* *
46741064 TAAAAAAATAT
1 T--TAATAT-T
46741075 TTAATATT
1 TTAATATT
46741083 TTAATATT
1 TTAATATT
46741091 TTAATA
1 TTAATA
46741097 ATATTAGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 24 0.71
9 4 0.12
10 4 0.12
11 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTAATATT
Found at i:46748877 original size:22 final size:22
Alignment explanation
Indices: 46748852--46748898 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
46748842 ATAAATTTAT
46748852 TAAATA-TTAAAATAA-AATAAAA
1 TAAATATTTAAAA-AATAA-AAAA
46748874 TAAATATTTAAAAAATAAAAAA
1 TAAATATTTAAAAAATAAAAAA
46748896 TAA
1 TAA
46748899 TATGGGTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAAATATTTAAAAAATAAAAAA
Found at i:46749833 original size:37 final size:37
Alignment explanation
Indices: 46749783--46749856 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
46749773 AGATCTCGAA
*
46749783 TCGAGTGATTTTATTCAAGTGGAATGTGTCACAATCT
1 TCGAGTGATTTTATGCAAGTGGAATGTGTCACAATCT
*
46749820 TCGAGTGATTTTATGCAAGTGGGATGTGTCACAATCT
1 TCGAGTGATTTTATGCAAGTGGAATGTGTCACAATCT
46749857 AACATTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (37 bp):
TCGAGTGATTTTATGCAAGTGGAATGTGTCACAATCT
Found at i:46750387 original size:59 final size:61
Alignment explanation
Indices: 46750294--46750407 Score: 171
Period size: 59 Copynumber: 1.9 Consensus size: 61
46750284 ATTCTATTTT
* *
46750294 TTTTTTTTTATTCATTTATTATTATTTTTATGAATATAAATAAATATA-AAATAATATTAA
1 TTTTGTTTTATTCATTTATTATTATTTTTATGAATATAAATAAATAAATAAATAATATTAA
*
46750354 TTTTGTTTTATT-ATTTATTTATTA-TTTTATGAATATAGATAAATAAATAAATAA
1 TTTTGTTTTATTCATTTA-TTATTATTTTTATGAATATAAATAAATAAATAAATAA
46750408 CAAGCCCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 26 0.53
60 23 0.47
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (61 bp):
TTTTGTTTTATTCATTTATTATTATTTTTATGAATATAAATAAATAAATAAATAATATTAA
Found at i:46755427 original size:7 final size:7
Alignment explanation
Indices: 46755409--46755458 Score: 50
Period size: 8 Copynumber: 7.0 Consensus size: 7
46755399 AAAATAATAA
46755409 AAAAAGG
1 AAAAAGG
46755416 AAAAAAGG
1 -AAAAAGG
*
46755424 AAAAAAG
1 AAAAAGG
46755431 AGAAAAGAG
1 A-AAAAG-G
46755440 AAAAA-G
1 AAAAAGG
46755446 -AAAAGG
1 AAAAAGG
46755452 AAAAAGG
1 AAAAAGG
46755459 GGAGGTCGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 4 0.11
6 2 0.06
7 13 0.36
8 15 0.42
9 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:46756478 original size:49 final size:49
Alignment explanation
Indices: 46756339--46756478 Score: 154
Period size: 49 Copynumber: 2.9 Consensus size: 49
46756329 TCTACAGGTT
* * *
46756339 TGAAGGGAAAGATTGAAGTCGCAACGGTAAATCTGATACCCTAGAGATA
1 TGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCCTAGAGATA
* * * * * * *
46756388 TGAAGAGAAAGGTTAAAGCCGCAACGGCGAACCTTGTACCCTAGAGATG
1 TGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCCTAGAGATA
** * *
46756437 TGAAGGGAAAGATTGGGGCCGCAACGATGAATCTTACACCCT
1 TGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCCT
46756479 GAAGATGAGG
Statistics
Matches: 71, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (49 bp):
TGAAGGGAAAGATTGAAGCCGCAACGGTGAATCTTATACCCTAGAGATA
Found at i:46756816 original size:40 final size:40
Alignment explanation
Indices: 46756752--46757263 Score: 384
Period size: 40 Copynumber: 12.9 Consensus size: 40
46756742 AAGTTACAAT
* *
46756752 CATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGAC
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
* * *
46756792 CATTCAATTTTTTACCTTAATCAGAGGGCAGATTAAAGAC
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
* * *
46756832 CATTCAATTTTTTACCTTAATCAGAGGGCAGATTAAAGAC
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
* * *
46756872 CATTCAATCTTTTACCCTAA-CTAGAGGGTAGATTGAAG-C
1 CATCCAATCTTTTACCTTAATC-AGAGGGCAGATTGAAGAC
* *** *
46756911 CATCCAATCTCTTACCCCGACCATG-GGGCAGATTGAAG--
1 CATCCAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGAC
*
46756949 CAGTCCAATCTTTTACCTTAA-CTAGAGGGCAGATTGAAAAC
1 CA-TCCAATCTTTTACCTTAATC-AGAGGGCAGATTGAAGAC
* ** *** *
46756990 CATCCGATCGCTTACCCCGATCAAAGGGCAGATTGAAGAC
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
* * * * *
46757030 CATCCGATCTCTTACCTTGACCATG-GGGTAGATTGAAG-C
1 CATCCAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGAC
* *
46757069 AATCCAATCTTTTACCTTAACCAGAGGGCAGATTGAAGAC
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
* * * ** * * *
46757109 CATCCGATCTCTTATCTCGACCATGA-GGTAGACTGAAG-C
1 CATCCAATCTTTTACCTTAATCA-GAGGGCAGATTGAAGAC
* * * * *
46757148 AATTCAATCTTTTACCCTAA-CTAGAGGGAAGATTTAAGAC
1 CATCCAATCTTTTACCTTAATC-AGAGGGCAGATTGAAGAC
* *** * *
46757188 CATCCAATCTCTTACCCCGACCA-TGGGCAGATTGAAG-C
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
* * * *
46757226 AATCCAATCTTTTACCCTAACCAGAGGGCAGACTGAAG
1 CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAG
46757264 TCATCTAACA
Statistics
Matches: 383, Mismatches: 71, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
38 28 0.07
39 136 0.36
40 213 0.56
41 6 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
CATCCAATCTTTTACCTTAATCAGAGGGCAGATTGAAGAC
Found at i:46757084 original size:79 final size:79
Alignment explanation
Indices: 46756753--46757263 Score: 424
Period size: 79 Copynumber: 6.5 Consensus size: 79
46756743 AGTTACAATC
* * * * * *
46756753 ATCCAATCTTTTACCCTAATCAGAGGGCAAATTGAAGACCATTCAATTTTTTACCTTAATCAGAG
1 ATCCAATCTTTTACCCCAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCTTAACCAGAG
* *
46756818 GGCAGATTAAAGACC
66 GGCAGATTGAAG-CA
* * ** * * * * *
46756833 ATTCAATTTTTTACCTTAATCAGAGGGCAGATTAAAGACCATTCAATCTTTTACCCTAACTAGAG
1 ATCCAATCTTTTACCCCAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCTTAACCAGAG
* *
46756898 GGTAGATTGAAGCC
66 GGCAGATTGAAGCA
* * * * *
46756912 ATCCAATCTCTTACCCCGACCATG-GGGCAGATTGAAG--CAGTCCAATCTTTTACCTTAACTAG
1 ATCCAATCTTTTACCCCAATCA-GAGGGCAGATTGAAGACCA-TCCAATCTCTTACCTTAACCAG
* *
46756974 AGGGCAGATTGAAAACC
64 AGGGCAGATTG-AAGCA
* ** * * * *
46756991 ATCCGATCGCTTACCCCGATCAAAGGGCAGATTGAAGACCATCCGATCTCTTACCTTGACCATG-
1 ATCCAATCTTTTACCCCAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCTTAACCA-GA
*
46757055 GGGTAGATTGAAGCA
65 GGGCAGATTGAAGCA
** * * * **
46757070 ATCCAATCTTTTACCTTAACCAGAGGGCAGATTGAAGACCATCCGATCTCTTATCTCGACCATGA
1 ATCCAATCTTTTACCCCAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCTTAACCA-GA
* *
46757135 -GGTAGACTGAAGCA
65 GGGCAGATTGAAGCA
* * * * *** *
46757149 ATTCAATCTTTTACCCTAA-CTAGAGGGAAGATTTAAGACCATCCAATCTCTTACCCCGACCA-T
1 ATCCAATCTTTTACCCCAATC-AGAGGGCAGATTGAAGACCATCCAATCTCTTACCTTAACCAGA
46757212 GGGCAGATTGAAGCA
65 GGGCAGATTGAAGCA
* * *
46757227 ATCCAATCTTTTACCCTAACCAGAGGGCAGACTGAAG
1 ATCCAATCTTTTACCCCAATCAGAGGGCAGATTGAAG
46757264 TCATCTAACA
Statistics
Matches: 361, Mismatches: 59, Indels: 24
0.81 0.13 0.05
Matches are distributed among these distances:
77 2 0.01
78 74 0.20
79 189 0.52
80 93 0.26
81 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (79 bp):
ATCCAATCTTTTACCCCAATCAGAGGGCAGATTGAAGACCATCCAATCTCTTACCTTAACCAGAG
GGCAGATTGAAGCA
Done.