Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018399019.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2298.0, whole genome shotgun sequence
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: 6934
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.32
Warning! 911 characters in sequence are not A, C, G, or T
Found at i:314 original size:169 final size:160
Alignment explanation
Indices: 228--895 Score: 205
Period size: 169 Copynumber: 4.0 Consensus size: 160
218 NNNNNNNNNN
* * * *
228 GCCAAT-AGATATCTTTTTCTTCACATTTTTCAAGGAAGATATTCAATTATAATATGTTTTAA-T
1 GCCAATGA-ATATCATTTTCTTCACATTTTCCAACGAAGACATTCAATTATAATATGTTTTAACT
* * * *
291 AAAAGTATAAAAAAATT-AACTTAAAGTCAATTATGAGATTATAAAAACATTTAAAGCGAGTAAT
65 AAAAATAT-AAAAAATTCAACTTAAAATCAATCATGAGATTATAAAAACATGTAAAGCGAGTAAT
*
355 AAGATTTTCGAAGGCATGGGTGACTATAAAT-
129 AAGATTTACGAAGGCATGGGTGACTATAAATG
** **** * * *
386 GCACTTTTCTTGNNNNNNNNNNTCTTTTTCTTCACA-TTTCTCAAGGTAGACATTCAATTATAAT
1 GC-C----AATG------AATATCATTTTCTTCACATTTTC-CAACGAAGACATTCAATTATAAT
* * * * * *
450 ATGCTGTAA-TAAAAAGTAGAAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAAATATTTA
54 ATGTTTTAACTAAAAA-TATAAAAAATTCAACTTAAAATCAATCATGAGATTATAAAAACATGTA
* * * * *
513 AAGCAAGTAAGAAGGCTTT-CGAAGGCATGGGTAACTGTAAATG
118 AAGCGAGTAATAA-GATTTACGAAGGCATGGGTGACTATAAATG
* * ********** *
556 CACTTTTCTTGCCAATGGATATCTTTTTCTTCACATTNNNNNNNNNNGACATTCAATTATAATCT
1 ----------GCCAATGAATATCATTTTCTTCACATTTTCCAACGAAGACATTCAATTATAATAT
* * * * *
621 GTTTTAA-TAAAAAATATAGAAAAA-TAAACTTAGAATCAATTATGAGATTATAAAAATATTTAA
56 GTTTTAACT-AAAAATATA-AAAAATTCAACTTAAAATCAATCATGAGATTATAAAAACATGTAA
** * * * * *
684 AGTAAGTAGACAGGCTTT-TGAAGGCATGGGTAACTATAAATG
119 AGCGAGTA-ATAAGATTTACGAAGGCATGGGTGACTATAAATG
* * * *
726 GACTTCTCTTGTCAATGGATATCTTTTTCTTCAC-GTTTCTCAAC-ATAGACATCCAATTATAAT
1 G------C----CAATGAATATCATTTTCTTCACATTTTC-CAACGA-AGACATTCAATTATAAT
* * * * * *
789 CTATTTTAA-TAAAAAATATAAAGAAATTCAACTCAAAATCAATTATGAGATTGT-AAAACTATT
54 ATGTTTTAACT-AAAAATATAAA-AAATTCAACTTAAAATCAATCATGAGATTATAAAAAC-ATG
* * * * * *
852 TAAAGTGTGTAAGAAGGTTTTCGACGGCATGGGTGACTATAAAT
116 TAAAGCGAGTAATAAGATTTACGAAGGCATGGGTGACTATAAAT
896 CCATTTTTTT
Statistics
Matches: 390, Mismatches: 72, Indels: 83
0.72 0.13 0.15
Matches are distributed among these distances:
158 2 0.01
159 1 0.00
160 1 0.00
163 1 0.00
166 1 0.00
168 3 0.01
169 164 0.42
170 155 0.40
171 57 0.15
175 2 0.01
179 1 0.00
180 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.34
Consensus pattern (160 bp):
GCCAATGAATATCATTTTCTTCACATTTTCCAACGAAGACATTCAATTATAATATGTTTTAACTA
AAAATATAAAAAATTCAACTTAAAATCAATCATGAGATTATAAAAACATGTAAAGCGAGTAATAA
GATTTACGAAGGCATGGGTGACTATAAATG
Found at i:785 original size:170 final size:169
Alignment explanation
Indices: 1--2515 Score: 1851
Period size: 171 Copynumber: 14.8 Consensus size: 169
* * * * *
1 ATTTAAAGCGAGTAATAAGACTTTCGAAGGTATAGGTGACTATAAATGGAC-TTTCTTGCCAATG
1 ATTTAAAGCGAGTAA-CAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * ** * * *
65 AATATCATTTTCTTCATGTTT-TCCAACGTAGACATTTAATTATTATCTGTTTTAACT-AAAAAT
65 GATATCTTTTTCTTCACATTTCT-CAAGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAAT
* * *
128 ATAAGAAATTCAACTTAAAATCAATCATGAGATTATGAAAAC
128 ATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * * **********
170 ATGTAAAGCGTGTAATAAGG-TTTACGAAGGCATGGGTGACTATAAATGNNNNNNNNNNGCCAAT
1 ATTTAAAGCGAGTAA-CAGGCTTT-TGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * * * * *
234 AGATATCTTTTTCTTCACATTTTTCAAGGAAGATATTCAATTATAATATGTTTTAAT-AAAAGTA
64 GGATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATA
*
298 TAAAAAAATT-AACTTAAAGTCAATTATGAGATTATAAAAAC
129 T-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * * ******
339 ATTTAAAGCGAGTAATAAGATTTTCGAAGGCATGGGTGACTATAAATGCACTTTTCTTGNNNNNN
1 ATTTAAAGCGAGTAACAGGCTTTT-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
**** * * * * *
404 NNNNTCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATATGCTGTAATAAAAAGTAG
65 GATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
*
469 AAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAAAT
130 AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * * * *
508 ATTTAAAGCAAGTAAGAAGGCTTTCGAAGGCATGGGTAACTGTAAATGCACTTTTCTTGCCAATG
1 ATTTAAAGCGAGTAA-CAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
**********
573 GATATCTTTTTCTTCACATTNNNNNNNNNNGACATTCAATTATAATCTGTTTTAATAAAAAATAT
65 GATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
* * *
638 AGAAAAA-TAAACTTAGAATCAATTATGAGATTATAAAAAT
130 A-AAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
** * * *
678 ATTTAAAGTAAGTAGACAGGCTTTTGAAGGCATGGGTAACTATAAATGGACTTCTCTTGTCAATG
1 ATTTAAAGCGAGTA-ACAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* ** * *
743 GATATCTTTTTCTTCACGTTTCTCAACATAGACATCCAATTATAATCTATTTTAATAAAAAATAT
65 GATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
* *
808 AAAGAAATTCAACTCAAAATCAATTATGAGATTGT-AAAAC
130 AAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * * ** * *
848 TATTTAAAGTGTGTAAGAAGG-TTTTCGACGGCATGGGTGACTATAAATCCA-TTTTTTTCCCAA
1 -ATTTAAAGCGAGTAA-CAGGCTTTT-GAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAA
* * * * *
911 TGGATATCTTTTTCTT--TATGTTCCCTGAGGTAGACATTCAATTATAATCTGTTGTAATAAAAC
63 TGGATATCTTTTTCTTCACAT-TTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAATAAAAA
* * * * *
974 ATATAAAAAAGTTTAAGTTAAAATCAATTATGACATTGTAAAACC
126 ATATAAAAAA-TTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * * * * * *
1019 ATTTAAAGCGAGTAATAAGACTTTTGAGGGTATGGGTGACTATAAATTGACTTCTCTTACTAATG
1 ATTTAAAGCGAGTAA-CAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * ** * * * * * *
1084 GATATCTTTTTCTTTACATTTTTTGAGGCATACATTTAATTAAAATATATTTTAATAAAAAATAT
65 GATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
* * * * *
1149 AACACAATTTAACTTAGAATCAATTATGGGATTATAAAAAT
130 AA-AAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
** * * *
1190 ATTTAAAGCGAGTAACAAGGCTTTCAAAGGCACT-AGTGACAATAAATGGACTTTTTTTGCCAAT
1 ATTTAAAGCGAGTAAC-AGGCTTTTGAAGGCA-TGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * ** **********
1254 AGATATCTTTTTC--CACATGTGTCCCGTGGTAGACATTCAATTATAATCTNNNNNNNNNNAAAA
64 GGATATCTTTTTCTTCACAT-T-TCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAA
** *
1317 TATAAAAACATTCAACTTAAAATCAATTACAAGATTGT-AAAAC
127 TATAAAAA-ATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * * * **
1360 AACTTAAAGCAAGTAATAGGGCTTTTGAAGACATAGGT-ATCTATAAATGGACTTTTCTTATCAA
1 -ATTTAAAGCGAGTAACA-GGCTTTTGAAGGCATGGGTGA-CTATAAATGGACTTTTCTTGCCAA
* * *
1424 TGAATATCTTTTTCTTCACATTT-TCTAAGGTAGACATTCAATTATAATCTGTTCTAAGAAAAAA
63 TGGATATCTTTTTCTTCACATTTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAA
* * *
1488 TATAAAAAAAATAAACTTTAAATCAATTATGAGATTATAAAAAC
127 TAT-AAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
********** * * * *
1532 ANNNNNNNNNNGTAAACAGGCTTTCGAAGGCATGGGTGACTATAAATGAAATTTT-TTGGCTAAT
1 ATTTAAAGCGAGT-AACAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTT-GCCAAT
** *
1596 GGATATCTTTTTCTTTGCATTTC-CTAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAGT
64 GGATATCTTTTTCTTCACATTTCTC-AAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT
* *****
1660 ATAAAAAA--AAAGCTTAAAATCAATTATGAGATTATANNNNN
128 ATAAAAAATTCAA-CTTAAAATCAATTATGAGATTATAAAAAC
***** * * * * * *
1701 NNNNNAAGTGAGTAATAAGGCTTTTGAAGACATGGCTGACTATAAATGGACTTTTCTTACTAATG
1 ATTTAAAGCGAGTAA-CAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * * *
1766 GATATCTTTTTCCTCACATTTACT-AAGGTAGACATTCAATTATAATATGCTTTAATAAAATATA
65 GATATCTTTTTCTTCACATTT-CTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATA
* *
1830 TTAAAAAA-TAAACTTAGAATCAATTATGAGATTATAAAAAC
129 -TAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * *
1871 ATTTAAAG-GAAGTAAACAGGCTTTCGAAGGCATGTGTAACTATAAACGGACTTTTCTTGCCAAT
1 ATTTAAAGCG-AGT-AACAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAAT
* * **
1935 GGATGTCTTTTTCTTCACGTTTCTCAACATAGACA-TCTAATTATAATCTGTTTTAATAAAAAAT
64 GGATATCTTTTTCTTCACATTTCTCAAGGTAGACATTC-AATTATAATCTGTTTTAATAAAAAAT
* * * * *
1999 GTAAAGAAATTCAACTCAAAATTAATTATGAGATTGTAAAACC
128 ATAAA-AAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * ** * * *
2042 ATTTAAAG-TATGTAACAAGGCTTTCGACGGCATCAGTGACTATAAATCGACTTTTGTTCCCAAT
1 ATTTAAAGCGA-GTAAC-AGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAAT
** * ** * * * * ********
2106 AAATATCTTTTTCTTTATGTTCCCCAAGGCAGACATTCAATTATAATATGTTTTANNNNNNNNNN
64 GGATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTA--ATAAAAAA
* * *
2171 TA-AAAAAATTCAAGTTAAAATCAA-T-TGTGATTGT-AAAAC
127 TATAAAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * * ** ** * *
2210 TATTTAAAGCAAGTAGGA-AGGCTTTTAAAGGCATAGGCAACTATAAATCTACTTCTCTTACCAA
1 -ATTTAAAGCGAGTA--ACAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAA
* * * * * ** * *
2274 TGGTTATTTTTTTCTTTATATTTTTTGAGGCAGACATTCAATTATAATCTATTTTAATAAAAAAT
63 TGGATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT
* * *
2339 ATAAAACAACTCAGCTTAAAATCAATTATGAGATTATAAAAAT
128 ATAAAA-AATTCAACTTAAAATCAATTATGAGATTATAAAAAC
* * ** *
2382 ATTTAAAGTGAGTACCAAGGCTTTTGAAGGCATTAGTGACTATAAATGGACTTTTCTTACCAATG
1 ATTTAAAGCGAGTAAC-AGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATG
* * ** *
2447 GATATCTTTTTC--CATATGTGTCCCGTGGTAGACATTCAATTATAATCTATTTTAATAAAAAAT
65 GATATCTTTTTCTTCACAT-T-TCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAT
2510 ATAAAA
128 ATAAAA
2516 NNNNNNNNNN
Statistics
Matches: 1839, Mismatches: 432, Indels: 148
0.76 0.18 0.06
Matches are distributed among these distances:
167 2 0.00
168 19 0.01
169 553 0.30
170 503 0.27
171 724 0.39
172 30 0.02
173 8 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.34
Consensus pattern (169 bp):
ATTTAAAGCGAGTAACAGGCTTTTGAAGGCATGGGTGACTATAAATGGACTTTTCTTGCCAATGG
ATATCTTTTTCTTCACATTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATA
AAAAATTCAACTTAAAATCAATTATGAGATTATAAAAAC
Found at i:1377 original size:342 final size:338
Alignment explanation
Indices: 3--2515 Score: 1067
Period size: 340 Copynumber: 7.4 Consensus size: 338
1 AT
* * * * ** *
3 TTAAAGCGAGTAATAAGACTTTCGAAGGTATAGGTGACTATAAATGGACTT-TCTTGCCAATGAA
1 TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGT-ACTATAAATGGACTTCTCTTATCAATGGA
* ** * * * * * * *
67 TATCATTTTCTTCATGTTTTCCAACGTAGACATTTAATTATTATCTGTTTTAACT-AAAAATATA
65 TATCTTTTTCTTCACATTTTCTAAGGCATACATTCAATTATAATCTATTTTAA-TAAAAAATATA
* * * * * * * *
131 AGAAATTCAACTTAAAATCAATCATGAGATTATGAAAACATGTAAAGCGTGTAATAAGG-TTTAC
129 AAAAATTAAACTT-AAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACAAGGCTTT-C
* * * *********** **
195 GAAGGCATGGGTGACTATAAATGNNNNNNNNNNGCCAATAGATATCTTTTTCTTCACAT-TTTTC
192 AAAGGCATGAGTGACAATAAAT-CCATTTTTTTCCCAATAGATATCTTTTTC--CACATGTTCCC
* * * * * * * *
259 -AAGGAAGATATTCAATTATAATATGTTTTAATAAAA-GTATAAAAAAATT-AACTTAAAGTCAA
254 TGAGGTAGACATTCAATTATAATCTGTTGTAATAAAACATATAAAAAAGTTCAACTTAAAATCAA
** * * *
321 TTATGAGATTATAAAA-ACAT
319 TTACAACATTGTAAAACA-AC
* * * ********
341 TTAAAGCGAGTAATAAGA-TTTTCGAAGGCATGGGTGACTATAAATGCACTTTTCTTGNNNNNNN
1 TTAAAGCAAGTAATAAGACTTTT-GAAGGCATGGGT-ACTATAAATGGACTTCTCTTATCAATGG
*** * * * ** * * *
405 NNNTCTTTTTCTTCACA-TTTCTCAAGGTAGACATTCAATTATAATATGCTGTAATAAAAAGTAG
64 ATATCTTTTTCTTCACATTTTCT-AAGGCATACATTCAATTATAATCTATTTTAATAAAAAATAT
* * *
469 AAAAAATTCAACTTAAAATCAATTATGAGATTAT-AAAATATTTAAAGCAAGTAAGAAGGCTTTC
128 AAAAAATTAAACTT-AAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACAAGGCTTTC
* * * ** * * * * ***
533 GAAGGCATGGGTAACTGTAAATGCACTTTTCTTGCCAATGGATATCTTTTTCTTCACA--TTNNN
192 AAAGGCATGAGTGACAATAAATCCA-TTTTTTTCCCAATAGATATCTTTTTC--CACATGTTCCC
******* * * * *
596 NNNNNNNGACATTCAATTATAATCTGTTTTAATAAAAAATATAGAAAAA--TAAACTTAGAATCA
254 TGAGGTAGACATTCAATTATAATCTGTTGTAATAAAACATATA-AAAAAGTTCAACTTAAAATCA
** * * *
659 ATTATGAGATTATAAAA-ATAT
318 ATTACAACATTGTAAAACA-AC
* * * *
680 TTAAAGTAAGTAGA-CAGGCTTTTGAAGGCATGGGTAACTATAAATGGACTTCTCTTGTCAATGG
1 TTAAAGCAAGTA-ATAAGACTTTTGAAGGCATGGGT-ACTATAAATGGACTTCTCTTATCAATGG
* *
744 ATATCTTTTTCTTCAC-GTTTCTCAA--CATAGACATCCAATTATAATCTATTTTAATAAAAAAT
64 ATATCTTTTTCTTCACATTTTCT-AAGGCAT--ACATTCAATTATAATCTATTTTAATAAAAAAT
* * * * * * * *
806 ATAAAGAAATTCAACTCAAAATCAATTATGAGATTGTAAAACTATTTAAAGTGTGTAAGAAGGTT
126 ATAAA-AAATTAAACT-TAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACAAGGCT
* * * * * ***
871 TTCGACGGCATGGGTGACTATAAATCCATTTTTTTCCCAATGGATATCTTTTTCTTTATGTTCCC
189 TTCAAAGGCATGAGTGACAATAAATCCATTTTTTTCCCAATAGATATCTTTTTCCACATGTTCCC
* *
936 TGAGGTAGACATTCAATTATAATCTGTTGTAATAAAACATATAAAAAAGTTTAAGTTAAAATCAA
254 TGAGGTAGACATTCAATTATAATCTGTTGTAATAAAACATATAAAAAAGTTCAACTTAAAATCAA
** * *
1001 TTATGACATTGTAAAACCAT
319 TTACAACATTGTAAAACAAC
* * * *
1021 TTAAAGCGAGTAATAAGACTTTTGAGGGTATGGGTGACTATAAATTGACTTCTCTTA-CTAATGG
1 TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGT-ACTATAAATGGACTTCTCTTATC-AATGG
* * * * * *
1085 ATATCTTTTTCTTTACATTTTTTGAGGCATACATTTAATTAAAATATATTTTAATAAAAAATATA
64 ATATCTTTTTCTTCACATTTTCTAAGGCATACATTCAATTATAATCTATTTTAATAAAAAATATA
* * *
1150 ACACAATTTAACTTAGAATCAATTATGGGATTATAAAAATATTTAAAGCGAGTAACAAGGCTTTC
129 A-AAAATTAAACTTA-AATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACAAGGCTTTC
** *
1215 AAAGGCACT-AGTGACAATAAATGGACTTTTTTTGCCAATAGATATCTTTTTCCACATGTGTCCC
192 AAAGGCA-TGAGTGACAATAAATCCA-TTTTTTTCCCAATAGATATCTTTTTCCACATGT-TCCC
* *********
1279 -GTGGTAGACATTCAATTATAATCTNNNNNNNNNNAAA-ATATAAAAACA-TTCAACTTAAAATC
254 TGAGGTAGACATTCAATTATAATCT-GTTGTAATAAAACATATAAAAA-AGTTCAACTTAAAATC
*
1341 AATTACAAGATTGTAAAACAAC
317 AATTACAACATTGTAAAACAAC
* * * * * *
1363 TTAAAGCAAGTAATAGGGCTTTTGAAGACATAGGTATCTATAAATGGACTTTTCTTATCAATGAA
1 TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGTA-CTATAAATGGACTTCTCTTATCAATGGA
* * * * *
1428 TATCTTTTTCTTCACATTTTCTAAGGTAGACATTCAATTATAATCTGTTCTAAGAAAAAATATAA
65 TATCTTTTTCTTCACATTTTCTAAGGCATACATTCAATTATAATCTATTTTAATAAAAAATAT-A
* * **********
1493 AAAAAATAAACTTTAAATCAATTATGAGATTATAAAAACANNNNNNNNNNGTAA-ACAGGCTTTC
129 AAAAATTAAAC-TTAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACA-AGGCTTTC
* * * ** ** * * **
1557 GAAGGCATGGGTGACTATAAATGAAATTTTTTGGCTAATGGATATCTTTTTCTTTGCAT-TT-CC
192 AAAGGCATGAGTGACAATAAAT-CCATTTTTTTCCCAATAGATATCTTTTTC--CACATGTTCCC
* * *
1620 TAAGGTAGACATTCAATTATAATCTGTTTTAATAAAA-AGTATAAAAAA---AAAGCTTAAAATC
254 TGAGGTAGACATTCAATTATAATCTGTTGTAATAAAACA-TATAAAAAAGTTCAA-CTTAAAATC
** * * *******
1681 AATTATGAGATTATANNNNNNN
317 AATTACAACATTGTAAAACAAC
*** ** * * * *
1703 NNNAAGTGAGTAATAAGGCTTTTGAAGACATGGCTGACTATAAATGGACTTTTCTTA-CTAATGG
1 TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGT-ACTATAAATGGACTTCTCTTATC-AATGG
* * * * * ** *
1767 ATATCTTTTTCCTCACATTTACTAAGGTAGACATTCAATTATAATATGCTTTAATAAAATATATT
64 ATATCTTTTTCTTCACATTTTCTAAGGCATACATTCAATTATAATCTATTTTAATAAAAAATA-T
*
1832 AAAAAA-TAAACTTAGAATCAATTATGAGATTATAAAAACATTTAAAG-GAAGTAA-ACAGGCTT
128 AAAAAATTAAACTTA-AATCAATTATGAGATTATAAAAATATTTAAAGCG-AGTAACA-AGGCTT
* * * * * * * * * *
1894 TCGAAGGCATGTGTAACTATAAA-CGGACTTTTCTTGCCAATGGATGTCTTTTTCTTCACGT-TT
190 TCAAAGGCATGAGTGACAATAAATC-CA-TTTTTTTCCCAATAGATATCTTTTTC--CACATGTT
* * ** * * * *
1957 CTC-AACATAGACA-TCTAATTATAATCTGTTTTAATAAAAAATGTAAAGAAA-TTCAACTCAAA
251 CCCTGAGGTAGACATTC-AATTATAATCTGTTGTAATAAAACATATAAA-AAAGTTCAACTTAAA
* ** * * *
2019 ATTAATTATGAGATTGTAAAACCAT
314 ATCAATTACAACATTGTAAAACAAC
* * * * * * ** * * * ** **
2044 TTAAAGTATGTAACAAGGCTTTCGACGGCATCAGTGACTATAAATCGACTTTTGTTCCCAATAAA
1 TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGT-ACTATAAATGGACTTCTCTTATCAATGGA
* ** ** * * * * ********
2109 TATCTTTTTCTTTATGTTCCCCAAGGCAGACATTCAATTATAATATGTTTTANNNNNNNNNNTA-
65 TATCTTTTTCTTCACATTTTCTAAGGCATACATTCAATTATAATCTATTTTA--ATAAAAAATAT
* * * * * * ** *
2173 AAAAAATTCAAGTTAAAATCAA-T-TGTGATTGTAAAACTATTTAAAGCAAGTAGGAAGGCTTTT
128 AAAAAATTAAACTT-AAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACAAGGCTTTC
* * * * * * * * *** * ***
2236 AAAGGCAT-AG-GCAACTATAAATCTACTTCTCTTACCAATGGTTATTTTTTTCTTTATATTTTT
192 AAAGGCATGAGTG--ACAATAAATCCA-TTTTTTTCCCAATAGATATCTTTTTCCACATGTTCCC
* * * * * *
2299 TGAGGCAGACATTCAATTATAATCTATTTTAATAAAAAATATAAAACAA-CTCAGCTTAAAATCA
254 TGAGGTAGACATTCAATTATAATCTGTTGTAATAAAACATATAAAA-AAGTTCAACTTAAAATCA
** * * *
2363 ATTATGAGATTATAAAA-ATAT
318 ATTACAACATTGTAAAACA-AC
** ** * ** * *
2384 TTAAAGTGAGTACCAAGGCTTTTGAAGGCATTAGTGACTATAAATGGACTTTTCTTACCAATGGA
1 TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGT-ACTATAAATGGACTTCTCTTATCAATGGA
* * *** * *
2449 TATCTTTTTC--CATATGTGTCCCGTGGTAGACATTCAATTATAATCTATTTTAATAAAAAATAT
65 TATCTTTTTCTTCACAT-T-TTCTAAGGCATACATTCAATTATAATCTATTTTAATAAAAAATAT
2512 AAAA
128 AAAA
2516 NNNNNNNNNN
Statistics
Matches: 1705, Mismatches: 392, Indels: 155
0.76 0.17 0.07
Matches are distributed among these distances:
337 6 0.00
338 155 0.09
339 355 0.21
340 466 0.27
341 373 0.22
342 325 0.19
343 22 0.01
344 3 0.00
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.34
Consensus pattern (338 bp):
TTAAAGCAAGTAATAAGACTTTTGAAGGCATGGGTACTATAAATGGACTTCTCTTATCAATGGAT
ATCTTTTTCTTCACATTTTCTAAGGCATACATTCAATTATAATCTATTTTAATAAAAAATATAAA
AAATTAAACTTAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAACAAGGCTTTCAAAG
GCATGAGTGACAATAAATCCATTTTTTTCCCAATAGATATCTTTTTCCACATGTTCCCTGAGGTA
GACATTCAATTATAATCTGTTGTAATAAAACATATAAAAAAGTTCAACTTAAAATCAATTACAAC
ATTGTAAAACAAC
Found at i:2988 original size:171 final size:170
Alignment explanation
Indices: 2798--3240 Score: 514
Period size: 171 Copynumber: 2.6 Consensus size: 170
2788 NNNNNNNNNN
* * * *
2798 ATAGTCACCAATGCCTTCAAAAGCCTTGTCACTCGCTTTAAATGTTTTTATAATCTTATAATTGA
1 ATAGTCACCCATACCTTCAAAAGCCTTGTCACTCGCTTTAAATG-TTTTACAATCTCATAATTGA
* * * * *
2863 TTCTAAGCTGAGTTGTTTTATATTTTTTATTAAAATAAATTATAATTGAATGTCTGCCTCAAAAA
65 TTTTAAGCTGAATTTTTTTATATTTTTTATTAAAACAAATTACAATTGAATGTCTGCCTCAAAAA
*
2928 AAGTAAAGAAAAAAAAATCCATT-GGTAAGAGAAGTCAATTT
130 AAGTAAAGAAAAAAAAATCCATTAGG-AAGAAAAGTCAATTT
*** *
2969 ATAGTTGTCCATACCTTCAAAAGCCTT-CCTACTCGCTTTAAATGGTTTTACAATCTCATAATTG
1 ATAGTCACCCATACCTTCAAAAGCCTTGTC-ACTCGCTTTAAAT-GTTTTACAATCTCATAATTG
* * * * *
3033 ATTTTAA-CTTTAATTTTTTTACATTTTTTATTAAAACAGATTACAATTGAATGTCTGCCTTAGA
64 ATTTTAAGC-TGAATTTTTTTATATTTTTTATTAAAACAAATTACAATTGAATGTCTGCCTCAAA
* * * * * *
3097 GAACGTGAAGAAAAAGATATCTATTAGGAAGAAAAGTCAATTT
128 AAAAGTAAAGAAAAAAAAATCCATTAGGAAGAAAAGTCAATTT
* * * * * *
3140 ATAGTCACCCATACCGTCGAAAGCCTTGTTACACACTTTAAATAGTTTTACAATCTCATAATTAA
1 ATAGTCACCCATACCTTCAAAAGCCTTGTCACTCGCTTTAAAT-GTTTTACAATCTCATAATTGA
* *
3205 TTTTGAGTTGAATTTTTTTATATTTTTTATTAAAAC
65 TTTTAAGCTGAATTTTTTTATATTTTTTATTAAAAC
3241 GGAGTATAAT
Statistics
Matches: 226, Mismatches: 40, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
170 2 0.01
171 221 0.98
172 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (170 bp):
ATAGTCACCCATACCTTCAAAAGCCTTGTCACTCGCTTTAAATGTTTTACAATCTCATAATTGAT
TTTAAGCTGAATTTTTTTATATTTTTTATTAAAACAAATTACAATTGAATGTCTGCCTCAAAAAA
AGTAAAGAAAAAAAAATCCATTAGGAAGAAAAGTCAATTT
Found at i:4131 original size:341 final size:329
Alignment explanation
Indices: 3631--4262 Score: 675
Period size: 341 Copynumber: 1.9 Consensus size: 329
3621 AAGTTAAATG
* * *
3631 TTTTTATACTTTTTATTAAAATAGATTATAATTGAATGTCTACCTCAGGAAATGAGAGGAAAAAG
1 TTTTTATACTTTTTATTAAAACAGATTATAATTGAATGTCTACCTCAAGAAATGAGAAGAAAAAG
* *
3696 ATATCCATTAGCAACAAAATTCCATTTATAGTCAACCATGCCTTCGAAAGCCTTGTTACAAACTT
66 ATATCCATTAGCAACAAAATTCCATTTACAGTCAACCATGCCTTCGAAAGCCTTCTTACAAACTT
********** *
3761 TAAATAGTTTTACNNNNNNNNNNTTGATTTTGAGTTAAATTTCTTTA-CATTTTTGATTAAAAAC
131 TAAATAGTTTTACAATCTCATAATTGATTTTAAGTT-AATTTCTTTAGC-TTTTT-ATTAAAAA-
* * **
3825 AGATTATGATT-AGATGTTTATGTCGA-GAAACATGAAGAAAAAGATATCCATTGACAAAAAAAG
192 AGATTATAATTGA-ATGTCTACCTC-ATGAAACATGAAGAAAAAGATATCCATTGACAAAAAAAG
* *
3888 TCCGTATATATTTACCCATGCCTTCGAAAGCCTGTTACATGCTTTAAATGTTTTTATAANNNNNN
255 TCCGTATATAATCACCCATGCCTTCGAAAGCCTGTTACATGCTTTAAATGTTTTTATAA------
3953 NNNNGATTCAAAGTTTATTT
314 ----GATTCAAAGTTTATTT
* * *
3973 TTTTTAT-TTTTTTATTAAAACAGATTATAATTGAATGTCTACCTCAATAAATGTGAAGAAAAAG
1 TTTTTATACTTTTTATTAAAACAGATTATAATTGAATGTCTACCTCAAGAAATGAGAAGAAAAAG
* * * ***
4037 ATATCCATT-GCCAAGAAAAGTT-CATTTACAGTCACCCATGCCTTCGTAAGCCTTCTTACTCGC
66 ATATCCATTAG-CAACAAAA-TTCCATTTACAGTCAACCATGCCTTCGAAAGCCTTCTTACAAAC
* *
4100 TTTAAATA-TTTTTCTAATCTCATAATTGATTTTAAGTTAATTTTTTTATGCTTTTTATTAAAAA
129 TTTAAATAGTTTTAC-AATCTCATAATTGATTTTAAGTTAATTTCTTTA-GCTTTTTATTAAAAA
** * * * *
4164 AGATTATAATTGAATGTCTACCTCATGAAATGTGAATAAAAATATATCCATTGACAAGAAAAGTT
192 AGATTATAATTGAATGTCTACCTCATGAAACATGAAGAAAAAGATATCCATTGACAAAAAAAGTC
*
4229 CGTTTATAATCACCCATGCCTTCGAAAGCCTGTT
257 CGTATATAATCACCCATGCCTTCGAAAGCCTGTT
4263 TACTTNNNNN
Statistics
Matches: 243, Mismatches: 40, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
338 1 0.00
339 82 0.34
340 24 0.10
341 126 0.52
342 10 0.04
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.37
Consensus pattern (329 bp):
TTTTTATACTTTTTATTAAAACAGATTATAATTGAATGTCTACCTCAAGAAATGAGAAGAAAAAG
ATATCCATTAGCAACAAAATTCCATTTACAGTCAACCATGCCTTCGAAAGCCTTCTTACAAACTT
TAAATAGTTTTACAATCTCATAATTGATTTTAAGTTAATTTCTTTAGCTTTTTATTAAAAAAGAT
TATAATTGAATGTCTACCTCATGAAACATGAAGAAAAAGATATCCATTGACAAAAAAAGTCCGTA
TATAATCACCCATGCCTTCGAAAGCCTGTTACATGCTTTAAATGTTTTTATAAGATTCAAAGTTT
ATTT
Found at i:4177 original size:170 final size:169
Alignment explanation
Indices: 3395--4259 Score: 708
Period size: 171 Copynumber: 5.1 Consensus size: 169
3385 NNNNNNNNNN
* *
3395 CTTCGAAAGCC-TGTTTACTTGCTTTAAATGTTTTTATAATCTCATAATTGATTCTAAGTTTAAT
1 CTTCGAAAGCCTTG-TTACTCGCTTTAAATGTTTTTATAATCTCATAATTGATTTTAAG-TTAAT
* *** *
3459 TTTTTAATAT-TTTTTATTAAAACAGATTATAATTGAATGTCTACCTTGGTAAATGTAAAGAAAA
64 TTTTT--TATCTTTTTATTAAAAAAGATTATAATTGAATGTCTACCTCAATAAATGTGAAGAAAA
** ********** *
3523 AGATATCCATTGGTANNNNNNNNNNATTTATAGTCACTCATGC
127 AGATATCCATTGACAAGAAAAGTTCATTTATAGTCACCCATGC
* * *
3566 CTTC-AAAGGCCTTATTACTCGCTTTACATGTATTTATAATCTCATAATTGATTTTAAGTTAAAT
1 CTTCGAAA-GCCTTGTTACTCGCTTTAAATGTTTTTATAATCTCATAATTGATTTTAAGTT-AAT
* * ** * *
3630 GTTTTTATACTTTTTATTAAAATAGATTATAATTGAATGTCTACCTCAGGAAATGAGAGGAAAAA
64 TTTTTTAT-CTTTTTATTAAAAAAGATTATAATTGAATGTCTACCTCAATAAATGTGAAGAAAAA
* *
3695 GATATCCATT-AGCAACAAAA-TTCCATTTATAGTCAACCATGC
128 GATATCCATTGA-CAAGAAAAGTT-CATTTATAGTCACCCATGC
*** *********** *
3737 CTTCGAAAGCCTTGTTACAAACTTTAAATAG-TTTTACNNNNNNNNNNTTGATTTTGAGTTAAAT
1 CTTCGAAAGCCTTGTTACTCGCTTTAAAT-GTTTTTATAATCTCATAATTGATTTTAAGTT-AAT
* * * ** * * **
3801 TTCTTTA-CATTTTTGATTAAAAACAGATTATGATT-AGATGTTTATGTCGAGAAACATGAAGAA
64 TTTTTTATC-TTTTT-ATTAAAAA-AGATTATAATTGA-ATGTCTACCTCAATAAATGTGAAGAA
* * * * * *
3864 AAAGATATCCATTGACAAAAAAAGTCCGTATATATTTACCCATGC
125 AAAGATATCCATTGACAAGAAAAGTTCATTTATAGTCACCCATGC
********** ** *
3909 CTTCGAAAGCC-TGTTACAT-GCTTTAAATGTTTTTATAANNNNNNNNNNGATTCAAAGTTTATT
1 CTTCGAAAGCCTTGTTAC-TCGCTTTAAATGTTTTTATAATCTCATAATTGATTTTAAG-TTAAT
* *
3972 TTTTTTATTTTTTTATTAAAACAGATTATAATTGAATGTCTACCTCAATAAATGTGAAGAAAAAG
64 TTTTTTATCTTTTTATTAAAAAAGATTATAATTGAATGTCTACCTCAATAAATGTGAAGAAAAAG
* *
4037 ATATCCATTGCCAAGAAAAGTTCATTTACAGTCACCCATGC
129 ATATCCATTGACAAGAAAAGTTCATTTATAGTCACCCATGC
* * * *
4078 CTTCGTAAGCCTTCTTACTCGCTTTAAATATTTTTCTAATCTCATAATTGATTTTAAGTTAATTT
1 CTTCGAAAGCCTTGTTACTCGCTTTAAATGTTTTTATAATCTCATAATTGATTTTAAGTTAATTT
* *
4143 TTTTATGCTTTTTATTAAAAAAGATTATAATTGAATGTCTACCTC-ATGAAATGTGAATAAAAAT
66 TTTTAT-CTTTTTATTAAAAAAGATTATAATTGAATGTCTACCTCAAT-AAATGTGAAGAAAAAG
* *
4207 ATATCCATTGACAAGAAAAGTTCGTTTATAATCACCCATGC
129 ATATCCATTGACAAGAAAAGTTCATTTATAGTCACCCATGC
4248 CTTCGAAAGCCT
1 CTTCGAAAGCCT
4260 GTTTACTTNN
Statistics
Matches: 550, Mismatches: 120, Indels: 49
0.76 0.17 0.07
Matches are distributed among these distances:
169 95 0.17
170 146 0.27
171 228 0.41
172 79 0.14
173 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.38
Consensus pattern (169 bp):
CTTCGAAAGCCTTGTTACTCGCTTTAAATGTTTTTATAATCTCATAATTGATTTTAAGTTAATTT
TTTTATCTTTTTATTAAAAAAGATTATAATTGAATGTCTACCTCAATAAATGTGAAGAAAAAGAT
ATCCATTGACAAGAAAAGTTCATTTATAGTCACCCATGC
Found at i:5606 original size:168 final size:168
Alignment explanation
Indices: 5130--5677 Score: 548
Period size: 169 Copynumber: 3.2 Consensus size: 168
5120 ATCATGTTTT
* * * * * *** *
5130 TCAAGGCAAACATTCAATTATTATCTGTTTTAACTAAAAATATCAGAAAATTTAACTTAAAGTTA
1 TCAAGGTAGACATTCAATTATAATCTGTTTTAA-TAAAAAAAT-ATAAAAAAAAACTTAAAGTCA
* * *
5195 ATCATGAGATTATAAAAACATTTAAAGTGAGTAATAAGGCTTTCGAAGGCATAGGTAACTATAAA
64 ATTATGAGATTATAAAAACATTTAAAG-CAGTAATAAGGCTTTCGAAGGCATGGGTAACTATAAA
* * * * *
5260 TAGACTTTTCTTTCCAATGAATATCGTTTTCTTCACATTTC
128 TGGACTTTTCTTGCTAATGGATATCTTTTTCTTCACATTTC
* * * *
5301 TCGAGGTAGACATTCAATTATAATCTATTTTAAT--AAAAGTATAAAAAAATCAACATAAAGTCA
1 TCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAATATAAAAAAA--AACTTAAAGTCA
* ********** *
5364 ATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGCTTNNNNNNNNNNGGGTGACTATAAA
64 ATTATGAGATTATAAAAACATTTAAAGC-AGTAATAAGGCTTTCGAAGGCATGGGTAACTATAAA
* *
5429 TGCACTTTTCTTGCTAATGGATGTCTTTTTCTTCACATTT-
128 TGGACTTTTCTTGCTAATGGATATCTTTTTCTTCACATTTC
* *
5469 TCAAGGTAGACATTCAATTTTAATCTGTTTTAATAAAAAAATATAAAAAAAAACTTTGAA-TCAA
1 TCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAATATAAAAAAAAAC-TTAAAGTCAA
* *
5533 TTATGAGATTATAAAAACATTTAAAGCATGTAA-ACAGGCTTTCGAAGGCATGGGTAAATATATA
65 TTATGAGATTATAAAAACATTTAAAGCA-GTAATA-AGGCTTTCGAAGGCATGGGTAACTATAAA
* * **
5597 CGGACTTTTCTTGTTAATGGATATCTTTTTCTTCATGTTTC
128 TGGACTTTTCTTGCTAATGGATATCTTTTTCTTCACATTTC
* ** * *
5638 TTAACATAGAAATCCAATTATAATCTGTTTTAATAAAAAA
1 TCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAA
5678 CGCAAAGAAA
Statistics
Matches: 301, Mismatches: 67, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
167 7 0.02
168 122 0.41
169 129 0.43
170 15 0.05
171 28 0.09
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.35
Consensus pattern (168 bp):
TCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAAAATATAAAAAAAAACTTAAAGTCAAT
TATGAGATTATAAAAACATTTAAAGCAGTAATAAGGCTTTCGAAGGCATGGGTAACTATAAATGG
ACTTTTCTTGCTAATGGATATCTTTTTCTTCACATTTC
Found at i:6297 original size:171 final size:171
Alignment explanation
Indices: 5901--6297 Score: 514
Period size: 171 Copynumber: 2.3 Consensus size: 171
5891 NNNNNNNNNN
* * * * * *
5901 AATTCAAGTTAAAATCAATTATGAGATTGTAAAACCATTTAAAGCGAGTAATAACGCTTTTGAGG
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTCGAAG
** * **
5966 GCATGGGTAACTATAAATCGACTTTTCTTGCCAATGGATATCTTTTTCTTTATGTTTCTGGAGGC
66 GCATGGGTAACTATAAATCGACTTTTCTTGCCAATGGATATCTTTTTCCATATGTGTCTCCAGGC
* * * *
6031 AAACATTTAATTATAATCTATTTTAATAAAATATATAACAC
131 AAACATTCAATTATAATCTATTTTAATAAAAAATAAAAAAC
* **
6072 AATTCAACTTAGAATCAATTATGAGATTATAAAAATATTTAAAGCGCA-TAATAAGGCTTTCGAA
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGC-CAGTAATAAGGCTTTCGAA
* *
6136 GGCATTGGTAACTATAAAT-GAACTTTTCTTGGCAATGGATATCTTTTTCCATATGTGTC-CCAT
65 GGCATGGGTAACTATAAATCG-ACTTTTCTTGCCAATGGATATCTTTTTCCATATGTGTCTCCA-
* *
6199 GGTAGACATTCAATTATAATCTATTTTAATAAAAAATACAAAAAC
128 GGCAAACATTCAATTATAATCTATTTTAATAAAAAATA-AAAAAC
* *
6244 -ATTCAACTTAAAATCAATTATGAGATTATAAAGCCATTTAAAGCTAGTAATAAG
1 AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAG
6298 NNNNNNNNNN
Statistics
Matches: 194, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
170 3 0.02
171 186 0.96
172 5 0.03
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (171 bp):
AATTCAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAGCCAGTAATAAGGCTTTCGAAG
GCATGGGTAACTATAAATCGACTTTTCTTGCCAATGGATATCTTTTTCCATATGTGTCTCCAGGC
AAACATTCAATTATAATCTATTTTAATAAAAAATAAAAAAC
Found at i:6684 original size:19 final size:19
Alignment explanation
Indices: 6656--6692 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6646 CTTAGAATTA
6656 ATTATGAGATTACAAAAAT
1 ATTATGAGATTACAAAAAT
* *
6675 ATTATTAGATTATAAAAA
1 ATTATGAGATTACAAAAA
6693 CATTTAAAAT
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:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (19 bp):
ATTATGAGATTACAAAAAT
Done.