Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018402491.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_5565.0, 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: 2816
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.30
Warning! 464 characters in sequence are not A, C, G, or T
Found at i:476 original size:170 final size:171
Alignment explanation
Indices: 1--2053 Score: 1670
Period size: 170 Copynumber: 12.0 Consensus size: 171
* ** * * *
1 TGAATGCTTTTTTCTT-GCATTTCTCAAGGTAG-CGTTCAATTATAGTCTATTTTATCCAAAAAT
1 TGAAT-CTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * *
64 GTAATAAAAAATTGAACTTAAACTCAATTATGTGATTATAAAACTATTTAAAGTGAGTAATAGGG
65 GTAA-AAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAATGAGTAATAAGG
**********
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTNNNNNNNNNN
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * *
172 TGAATGCTTTTTTCTTCATGA-TTCTCGAGGTAGACATTCAATTATAGTCTGTCTTAACCAAAAA
1 TGAAT-CTTTTTTCTTCA-CATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
* * * * * *
236 TCT-GAAAAAATTAAAGTTAAAATCAATTAT-AAATTTATAAAACTATTTAAAGTGAGTAATAAG
64 TGTAAAAAAAATTGAACTTAAAATCAATTATGAGA-TTATAAAACTATTTAAAATGAGTAATAAG
* * * * *
299 GCTTTTGAAGAAATGAGAGACTCTAAAGGGACTTGTCTTGCCTA
128 GCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * *
343 TGAAT-TTTTTTCTTCACATTTATTGAAGTAGACATTCAATTATAGTCCGTTTGAACCAAAAATG
1 TGAATCTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
* * * *
407 TAAAAAAAATTGAACTTAAACTCAATTACGAGATTATGAAACCATTTAAAATGAGTAATAAGGCT
66 TAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAATGAGTAATAAGGCT
* **
472 TTTGAAGGAAT--GAGACTATAAATGGATTTTTCTTGTAAA
131 TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* ** * *
511 TGAATGCTTTTTTATTCATC-TTTCTCAAAGCAGACATTCAATTATAGTCTGTTTTAACCAAAAA
1 TGAAT-CTTTTTTCTTCA-CATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
* * * * * * *
575 TATAAAAAAAATTGAACATAAAATTAATTTTGAGATAATAAAA-TAATTTAATACGAGTAATAAG
64 TGTAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAATGAGTAATAAG
* * * *
639 GCTTTTAAAGGAATGGGAGACTATAAATAGATTTTTCTTGCCAA
128 GCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * * * *
683 TGAATGTTTTTTTCTTC-TATTTCTTAAGGTAGACATTTAATTATAGTCTGTTTTAACTAAACAT
1 TGAAT-CTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
********** * *
747 GT-AAAAAAATTGNNNNNNNNNNCAATTATAAGATTATAAAACTATTTAAAGA-GAGTAATGAGG
65 GTAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAA-ATGAGTAATAAGG
* * ** **
810 TTTTTGAAGGAATGGGAGACTATAAATACACTTTTCTTGGTAA
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * **
853 TAAATGCTCTTTTCTT-GCATTTCTTGAGGTAG-CATTCAATTATAGTCTGTTTTAACTTAAAAT
1 TGAAT-CTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* **********
916 GTAATAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACTATTTANNNNNNNNNNTAAGG
65 GTAA-AAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAATGAGTAATAAGG
*
981 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCGAA
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * *
1024 TGAATGCTTTTTTCTTCATGA-TTCTTGAGGTAGACTTTCAATTATAGTCTGTCTTAACTAAAAA
1 TGAAT-CTTTTTTCTTCA-CATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
* * * * * * * *****
1088 TCTCAAAAATATTAAAGTTAAAATCAATTAT-AAATTTATAAAA-TCATTTAAAGTGAGTNNNNN
64 TGTAAAAAAAATTGAACTTAAAATCAATTATGAGA-TTATAAAACT-ATTTAAAATGAGTAATAA
***** * * * * *
1151 NNNNNTTGAAGAAATAAGAGACTATAAAAGGACTTATCTGGCCAA
127 GGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* ** *
1196 TGAAT-TTTTTTTTTCATGTTTGTTGAGGTAGACATTCAATTATAGTCT-TCTTTAACCAAAAAT
1 TGAATCTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGT-TTTAACCAAAAAT
* * *
1259 GTAAAAACAATTGAACTTCAAATCAATTATGAGATTATAAAA-TAATTTAAAACGAGTAATAAGG
65 GTAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAAATGAGTAATAAGG
* * * * * *
1323 CTTTTAAATGAATGGGAGACTATAAATGAATTTTTCTCT-TCAA
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCT-TGCCAA
* ** ** * **
1366 TGAATGCTTTTTTATTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTTTTTTAAGAAAAAAT
1 TGAAT-CTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * * * * * * *
1431 ATAAAAACAATAGAACATAAAATAAATTTTGAGATAATAAAA-TAATTTAAAGCT-AGTAATAAG
65 GTAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACT-ATTTAAA-ATGAGTAATAAG
*
1494 GCTTTTGAAGGAATGAGAGACTATAAATGAAC-TTTCTTGCCAA
128 GCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * * * *
1537 TGAATGCTTTTTTCATT--CATATCTTGAGGTAGCCATTTAACTGTAGTCTGTTTTAACTAAAAA
1 TGAAT-CTTTTTTC-TTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
** **********
1600 TGT-AAAAAAATTGAACTTAAAATCAATTACAAGATTATAAAACTANNNNNNNNNNGTAATAAGG
64 TGTAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAATGAGTAATAAGG
* * *
1664 CTTTTGAAGGAATGAGAGACTATAACTAGACTTTTCTTGTCAA
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* * * ** *
1707 TGAATGCTTTTTTCTT-TCATTTCTTGAGGTAG-CATACAATTATAGTCTATTTTGGCAAAAAAT
1 TGAAT-CTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAAT
* * ***********
1770 GTAAATAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCNNNNNNNNNNAGTAATAAGGC
65 GTAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAATGAGTAATAAGGC
* * * *
1835 TTATGAAGGAATGAGAGACTATAAATAGACTTTTCTTACGAA
130 TTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
* ** * *
1877 TGAATGCTTTTTTCTTCATGA-TTCTCAAGCTAGACATTCAATTATAGTCTGTCTTAACCAAAAA
1 TGAAT-CTTTTTTCTTCA-CATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAA
* * **
1941 TGTGAGAAAAATTGAACTTAAAATCAATTATGA-ATTTATAAAA-TCATTTAAAGCGAGTAATAA
64 TGTAAAAAAAATTGAACTTAAAATCAATTATGAGA-TTATAAAACT-ATTTAAAATGAGTAATAA
* * * * *
2004 GGCTTTTGAAGGTATGACAGACTATAAGTGCACTTTTCTTGCTAA
127 GGCTTTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
2049 TGAAT
1 TGAAT
2054 NNNNNNNNNN
Statistics
Matches: 1511, Mismatches: 326, Indels: 89
0.78 0.17 0.05
Matches are distributed among these distances:
168 27 0.02
169 177 0.12
170 588 0.39
171 272 0.18
172 386 0.26
173 61 0.04
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.35
Consensus pattern (171 bp):
TGAATCTTTTTTCTTCACATTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATG
TAAAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAACTATTTAAAATGAGTAATAAGGCT
TTTGAAGGAATGAGAGACTATAAATGGACTTTTCTTGCCAA
Found at i:1473 original size:342 final size:339
Alignment explanation
Indices: 1--2053 Score: 1225
Period size: 342 Copynumber: 6.0 Consensus size: 339
* * * * *
1 TGAATGCTTTTTTCTTGCA--TTTCTCAAGGTAG-CGTTCAATTATAGTCTATTTTATCCAAAAA
1 TGAATGCTTTTTTCTT-CATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA
* * * * * *
63 TGTAATAAAAAATTGAACTTAAACTCAATTATGTGATTATAAAA-CTATTTAAAGTGAGTAAT-A
65 TAT-A-AAAAAATAGAACATAAAATCAATTAT-AGATTATAAAATC-ATTTAAAGAGAGTAATGA
* * * ** ********** * *
126 GGGCTTTTGAAGGAATGAGAGACTATAAATGGACTTNNNNNNNNNNTGAATGCTTTTTTCTT-CA
126 -GGTTTTTGAAGAAATAAGAGACTATAAATACACTTATCTTGGCAATAAAT-CTCTTTTCTTGCA
* * * * * *
190 TGATTCTCGAGGTAGACATTCAATTATAGTCTGTCTTAACCAAAAATCT-GAAAAAATTAAAGTT
189 T--TTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAATTGAACTT
* ** * * *
254 AAAATCAATTAT-AAATTTATAAAACT-ATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGAGA
252 AAAATCAATTATGAGA-TTATAAAA-TAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGA
* * * * * *
317 GACTCTAAAGGGACTTGTCTTGCCTA
315 GACTATAAATGAATTTTTCTT-CCAA
** * * * *
343 TGAAT--TTTTTTCTTCACATTTATTGAA-GTAGACATTCAATTATAGTCCGTTTGAACCAAAAA
1 TGAATGCTTTTTTCTTCATGTTTCTT-AAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA
* * * * * * * *
405 TGTAAAAAAAATTGAACTTAAACTCAATTACGAGATTATGAAACCATTTAAA-ATGAGTAATAAG
65 TAT-AAAAAAATAGAACATAAAATCAATTA-TAGATTATAAAATCATTTAAAGA-GAGTAATGAG
* * ** * * ** * * *
469 GCTTTTGAAGGAAT--GAGACTATAAATGGATTTTTCTTGTAAATGAATGCTTTTTTATT-CATC
127 GTTTTTGAAGAAATAAGAGACTATAAATACACTTATCTTGGCAATAAAT-CTCTTTTCTTGCA--
** * * * *
531 TTTCTCAAAGCAGACATTCAATTATAGTCTGTTTTAACCAAAAATATAAAAAAAATTGAACATAA
189 TTTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAATTGAACTTAA
* * * *
596 AATTAATTTTGAGATAATAAAATAATTTAATACGAGTAATAAGGCTTTTAAAGGAATGGGAGACT
254 AATCAATTATGAGATTATAAAATAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGACT
661 ATAAAT-AGATTTTTCTTGCCAA
319 ATAAATGA-ATTTTTCTT-CCAA
* * * *
683 TGAATGTTTTTTTCTTC-TATTTCTTAAGGTAGACATTTAATTATAGTCTGTTTTAACTAAACAT
1 TGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT
* * **********
747 GTAAAAAAATTGNNNNNNNNNNCAATTATAAGATTATAAAA-CTATTTAAAGAGAGTAATGAGGT
66 ATAAAAAAATAGAACATAAAATCAATTAT-AGATTATAAAATC-ATTTAAAGAGAGTAATGAGGT
* ** * *
811 TTTTGAAGGAATGGGAGACTATAAATACACTTTTCTTGGTAATAAATGCTCTTTTCTTGCATTTC
129 TTTTGAAGAAATAAGAGACTATAAATACACTTATCTTGGCAATAAAT-CTCTTTTCTTGCATTTC
** *
876 TTGAGGTAG-CATTCAATTATAGTCTGTTTTAACTTAAAATGTAATAAAAAATTAAACTTAAAAT
193 TTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAA-AAAAAATTGAACTTAAAAT
********** * *
940 CAATTATGAGATTATAAAACT-ATTTANNNNNNNNNNTAAGGCTTTTGAAGGAATGAGAGACTAT
257 CAATTATGAGATTATAAAA-TAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGACTAT
* * *
1004 AAATGGACTTTTCTTGCGAA
321 AAATGAATTTTTCTT-CCAA
* * * *
1024 TGAATGCTTTTTTCTTCATGATTCTTGAGGTAGACTTTCAATTATAGTCTGTCTTAACTAAAAAT
1 TGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT
* * ** * * *******
1089 CTCAAAAATATTA-AAGTTAAAATCAATTATAAATTTATAAAATCATTTAAAGTGAGTNNNNNNN
66 AT-AAAAA-AATAGAACATAAAATCAATTATAGA-TTATAAAATCATTTAAAGAGAGTAATGAGG
*** * * * *
1153 NNNTTGAAGAAATAAGAGACTATAAA-AGGACTTATC-TGGCCAATGAAT-T-TTTTTTTTCATG
128 TTTTTGAAGAAATAAGAGACTATAAATA-CACTTATCTTGG-CAATAAATCTCTTTTCTTGCA--
* * *
1214 TTTGTTGAGGTAGACATTCAATTATAGTCT-TCTTTAACCAAAAATGTAAAAACAATTGAACTTC
189 TTTCTTGAGGTAGACATTCAATTATAGTCTGT-TTTAACCAAAAATGTAAAAAAAATTGAACTTA
*
1278 AAATCAATTATGAGATTATAAAATAATTTAAAACGAGTAATAAGGCTTTTAAATGAATGGGAGAC
253 AAATCAATTATGAGATTATAAAATAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGAC
*
1343 TATAAATGAATTTTTCTCTTCAA
318 TATAAATGAATTTTTCT-TCCAA
* * * **
1366 TGAATGCTTTTTTATTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTTTTTTAAGAAAAAAT
1 TGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT
* * * * ** * *
1431 ATAAAAACAATAGAACATAAAATAAATTTTGAGATAATAAAATAATTTAAAGCTAGTAATAAGGC
66 ATAAAAA-AATAGAACATAAAATCAATTAT-AGATTATAAAATCATTTAAAGAGAGTAATGAGGT
* * * * * *
1496 TTTTGAAGGAATGAGAGACTATAAATGA-ACTT-TCTTGCCAATGAATGCTTTTTTCATT-CATA
129 TTTTGAAGAAATAAGAGACTATAAAT-ACACTTATCTTGGCAATAAAT-CTCTTTTC-TTGCATT
* * * * *
1558 TCTTGAGGTAGCCATTTAACTGTAGTCTGTTTTAACTAAAAATGT-AAAAAAATTGAACTTAAAA
191 TCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAATTGAACTTAAAA
** ********** * *
1622 TCAATTACAAGATTATAAAACT-ANNNNNNNNNNGTAATAAGGCTTTTGAAGGAATGAGAGACTA
256 TCAATTATGAGATTATAAAA-TAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGACTA
* * *
1686 TAACT-AGACTTTTCTTGTCAA
320 TAAATGA-ATTTTTCTT-CCAA
* * * ** *
1707 TGAATGCTTTTTTCTTTCA--TTTCTTGAGGTAG-CATACAATTATAGTCTATTTTGGCAAAAAA
1 TGAATGCTTTTTTC-TTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAA
* * * ********** *
1769 TGTAAATAAAATTA-AACTTAAAATCAATTATGAGATTATAAAACCNNNNNNNNNNAGTAATAAG
65 TATAAA-AAAA-TAGAACATAAAATCAATTAT-AGATTATAAAATCATTTAAAGAGAGTAATGAG
* * * * * * * * *
1833 GCTTATGAAGGAATGAGAGACTATAAATAGACTTTTCTT-ACGAATGAATGCTTTTTTCTT-CAT
127 GTTTTTGAAGAAATAAGAGACTATAAATACACTTATCTTGGC-AATAAAT-CTCTTTTCTTGCAT
** * * * *
1896 GATTCTCAAGCTAGACATTCAATTATAGTCTGTCTTAACCAAAAATGTGAGAAAAATTGAACTTA
190 --TTCTTGAGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAATTGAACTTA
* * * * **
1961 AAATCAATTATGA-ATTTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGAAGGTATGACAGA
253 AAATCAATTATGAGA-TTATAAAATAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGA
* * * *
2025 CTATAAGTGCACTTTTCTTGCTAA
317 CTATAAATGAATTTTTCTT-CCAA
2049 TGAAT
1 TGAAT
2054 NNNNNNNNNN
Statistics
Matches: 1361, Mismatches: 286, Indels: 128
0.77 0.16 0.07
Matches are distributed among these distances:
338 1 0.00
339 182 0.13
340 226 0.17
341 369 0.27
342 469 0.34
343 102 0.07
344 10 0.01
345 2 0.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.35
Consensus pattern (339 bp):
TGAATGCTTTTTTCTTCATGTTTCTTAAGGTAGACATTCAATTATAGTCTGTTTTAACTAAAAAT
ATAAAAAAATAGAACATAAAATCAATTATAGATTATAAAATCATTTAAAGAGAGTAATGAGGTTT
TTGAAGAAATAAGAGACTATAAATACACTTATCTTGGCAATAAATCTCTTTTCTTGCATTTCTTG
AGGTAGACATTCAATTATAGTCTGTTTTAACCAAAAATGTAAAAAAAATTGAACTTAAAATCAAT
TATGAGATTATAAAATAATTTAAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGACTATAAATG
AATTTTTCTTCCAA
Found at i:2053 original size:683 final size:671
Alignment explanation
Indices: 1--2053 Score: 1984
Period size: 683 Copynumber: 3.0 Consensus size: 671
* * *
1 TGAATGCTTTTTTCTTGCA-TTTCTCAAGGTAG-CGTTCAATTATAGTCTATTTTATCCAAAAAT
1 TGAATGCTTTTTTCTT-CATTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACAAAAAAT
* * * *
64 GTAATAAAAAATTGAACTTAAACTCAATTATGTGATTATAAAACTATTTAAAGTGAGTAATAGGG
65 GT-A-AAAAAATTGAACATAAAATCAATTATGAGATTATAAAACTATTTAAAGT-AGTAATAAGG
* *********
129 CTTTTGAAGGAATGAGAGACTATAAATGGACTTNNNNNNNNNNTGAATGCTTTTTTCTTCATGAT
127 CTTTTGAAGGAATGAGAGACTATAAATGAACTT-TCTTGCCAATGAATGCTTTTTTCTTCAT-A-
* * * * * *
194 TCTCGAGGTAGACATTCAATTATAGTCTGTCTTAACCAAAAATCTGAAAAAATTAAAGTTAAAAT
189 TCTTGAGGTAG-CATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTAAACTTAAAAT
* *
259 CAATTATAA-ATTTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGAAATGAGAGACTCT
253 CAATTATAAGA-TTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACTAT
* * * * * *
323 AAAGGGACTTGTCTTGCCTATGAAT--TTTTTTCTTCACATTTATTGAAGTAGACATTCAATTAT
317 AAATGGACTTTTCTTG-CAATGAATGCTTTTTTCTT-TCATTTCTTGAGGTAGACATTCAATTAT
** * * * * *
386 AGTC-CGTTTGAACCAAAAATGTAAAAAAAATTGAACTTAAACTCAATTACGAGATTATGAAACC
380 AGTCTATTTTG-ACAAAAAATGT-AAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACC
* * *
450 ATTTAAAATGAGTAATAAGGCTTTTGAAGGAAT-GAGACTATAAATGGATTTTTCTTGTAAATGA
443 ATTTAAAATGAGTAATAAGGC-TTTGAAGGAATAGAGACTATAAATAGACTTTTCTTGCAAATGA
* * *
514 ATGCTTTTTTATTCATCTTTCTCAAAGC-AGACATTCAATTATAGTCTGTTTTAACCAAAAATAT
507 ATGCTTTTTTATTCATGTTTCTC-AAGCTAGACATTCAATTATAGTCTGTCTTAACCAAAAATGT
* * * *
578 AAAAAAAATTGAACATAAAATTAATTTTGAGATAATAAAATAATTTAATACGAGTAATAAGGCTT
571 -AAAAAAATTGAACTTAAAATCAATTATGAGATTATAAAATAATTTAA-ACGAGTAATAAGGCTT
643 TTAAAGGAATGGGAGACTATAAATAGATTTTTCTTGCCAA
634 TTAAAGGAATGGGAGACTATAAAT-GATTTTTCTTG-CAA
* * * * * *
683 TGAATGTTTTTTTCTTC-TATTTCTTAAGGTAGACATTTAATTATAGTCTGTTTTAACTAAACAT
1 TGAATGCTTTTTTCTTCAT-TTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACAAAAAAT
********** * * * *
747 GTAAAAAAATTGNNNNNNNNNNCAATTATAAGATTATAAAACTATTTAAAGAGAGTAATGAGGTT
65 GTAAAAAAATTGAACATAAAATCAATTATGAGATTATAAAACTATTTAAAG-TAGTAATAAGGCT
* ** * * *
812 TTTGAAGGAATGGGAGACTATAAAT-ACACTTTTCTTGGTAATAAATGCTCTTTTCTTGCATTTC
129 TTTGAAGGAATGAGAGACTATAAATGA-AC-TTTCTTGCCAATGAATGCTTTTTTCTT-CATATC
*
876 TTGAGGTAGCATTCAATTATAGTCTGTTTTAACTTAAAATGTAATAAAAAATTAAACTTAAAATC
191 TTGAGGTAGCATTCAATTATAGTCTGTTTTAACTAAAAATGT-A-AAAAAATTAAACTTAAAATC
* **********
941 AATTATGAGATTATAAAACTATTTANNNNNNNNNNTAAGGCTTTTGAAGGAATGAGAGACTATAA
254 AATTATAAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAA
*
1006 ATGGACTTTTCTTGCGAATGAATGCTTTTTTC-TTCATGATTCTTGAGGTAGACTTTCAATTATA
319 ATGGACTTTTCTTGC-AATGAATGCTTTTTTCTTTCAT--TTCTTGAGGTAGACATTCAATTATA
* * * * * * * * *
1070 GTCTGTCTTAACTAAAAATCTCAAAAATATTAAAGTTAAAATCAATTAT-AAATTTATAAAATCA
381 GTCTATTTTGACAAAAAATGT-AAAAAAATTAAACTTAAAATCAATTATGAGA-TTATAAAACCA
* ********* * * * *
1134 TTTAAAGTGAGTNNNNNNNNNNTTGAAGAAATAAGAGACTATAAA-AGGACTTATCTGGCCAATG
444 TTTAAAATGAGT-AATAAGGCTTTGAAGGAAT-AGAGACTATAAATA-GACTTTTCTTGCAAATG
* * ** *
1198 AAT--TTTTTTTTTCATGTTTGTTGAGGTAGACATTCAATTATAGTCT-TCTTTAACCAAAAATG
506 AATGCTTTTTTATTCATGTTTCTCAAGCTAGACATTCAATTATAGTCTGTC-TTAACCAAAAATG
*
1260 TAAAAACAATTGAACTTCAAATCAATTATGAGATTATAAAATAATTTAAAACGAGTAATAAGGCT
570 TAAAAA-AATTGAACTTAAAATCAATTATGAGATTATAAAATAATTT-AAACGAGTAATAAGGCT
* *
1325 TTTAAATGAATGGGAGACTATAAATGAATTTTTCTCTTCAA
633 TTTAAAGGAATGGGAGACTATAAATG-ATTTTTCT-TGCAA
* * *
1366 TGAATGCTTTTTTATTCATGTTTCTCAAGGTAGACATTCAATTATAGTCTTTTTTAAGAAAAAAT
1 TGAATGCTTTTTTCTTCAT-TTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACAAAAAAT
* * * * *
1431 ATAAAAACAATAGAACATAAAATAAATTTTGAGATAATAAAA-TAATTTAAAGCTAGTAATAAGG
65 GTAAAAA-AATTGAACATAAAATCAATTATGAGATTATAAAACT-ATTTAAAG-TAGTAATAAGG
1495 CTTTTGAAGGAATGAGAGACTATAAATGAACTTTCTTGCCAATGAATGCTTTTTTCATTCATATC
127 CTTTTGAAGGAATGAGAGACTATAAATGAACTTTCTTGCCAATGAATGCTTTTTTC-TTCATATC
* * * *
1560 TTGAGGTAGCCATTTAACTGTAGTCTGTTTTAACTAAAAATGTAAAAAAATTGAACTTAAAATCA
191 TTGAGGTAG-CATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTAAACTTAAAATCA
* ********** *
1625 ATTACAAGATTATAAAACTANNNNNNNNNNGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAC
255 ATTATAAGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAA
* *
1690 TAGACTTTTCTTGTCAATGAATGCTTTTTTCTTTCATTTCTTGAGGTAG-CATACAATTATAGTC
320 TGGACTTTTCTTG-CAATGAATGCTTTTTTCTTTCATTTCTTGAGGTAGACATTCAATTATAGTC
* *****
1754 TATTTTGGCAAAAAATGTAAATAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCNNNNN
384 TATTTTGACAAAAAATGTAAA-AAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTA
***** * *
1819 NNNNNAGTAATAAGGCTTATGAAGGAATGAGAGACTATAAATAGACTTTTCTTACGAATGAATGC
448 AAATGAGTAATAAGGCTT-TGAAGGAAT-AGAGACTATAAATAGACTTTTCTTGCAAATGAATGC
* * *
1884 TTTTTTCTTCATGATTCTCAAGCTAGACATTCAATTATAGTCTGTCTTAACCAAAAATGTGAGAA
511 TTTTTTATTCATGTTTCTCAAGCTAGACATTCAATTATAGTCTGTCTTAACCAAAAATGT-AAAA
* *
1949 AAATTGAACTTAAAATCAATTATGA-ATTTATAAAATCATTTAAAGCGAGTAATAAGGCTTTTGA
575 AAATTGAACTTAAAATCAATTATGAGA-TTATAAAATAATTTAAA-CGAGTAATAAGGCTTTTAA
* ** * *
2013 AGGTATGACAGACTATAAGTGCACTTTTCTTGCTAA
638 AGGAATGGGAGACTATAAATG-ATTTTTCTTGC-AA
2049 TGAAT
1 TGAAT
2054 NNNNNNNNNN
Statistics
Matches: 1106, Mismatches: 219, Indels: 91
0.78 0.15 0.06
Matches are distributed among these distances:
679 29 0.03
680 15 0.01
681 271 0.25
682 67 0.06
683 503 0.45
684 100 0.09
685 120 0.11
686 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.35
Consensus pattern (671 bp):
TGAATGCTTTTTTCTTCATTTTCTCAAGGTAGACATTCAATTATAGTCTATTTTAACAAAAAATG
TAAAAAAATTGAACATAAAATCAATTATGAGATTATAAAACTATTTAAAGTAGTAATAAGGCTTT
TGAAGGAATGAGAGACTATAAATGAACTTTCTTGCCAATGAATGCTTTTTTCTTCATATCTTGAG
GTAGCATTCAATTATAGTCTGTTTTAACTAAAAATGTAAAAAAATTAAACTTAAAATCAATTATA
AGATTATAAAACTATTTAAAGTGAGTAATAAGGCTTTTGAAGGAATGAGAGACTATAAATGGACT
TTTCTTGCAATGAATGCTTTTTTCTTTCATTTCTTGAGGTAGACATTCAATTATAGTCTATTTTG
ACAAAAAATGTAAAAAAATTAAACTTAAAATCAATTATGAGATTATAAAACCATTTAAAATGAGT
AATAAGGCTTTGAAGGAATAGAGACTATAAATAGACTTTTCTTGCAAATGAATGCTTTTTTATTC
ATGTTTCTCAAGCTAGACATTCAATTATAGTCTGTCTTAACCAAAAATGTAAAAAAATTGAACTT
AAAATCAATTATGAGATTATAAAATAATTTAAACGAGTAATAAGGCTTTTAAAGGAATGGGAGAC
TATAAATGATTTTTCTTGCAA
Done.