Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398814.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2099.0, 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: 11170
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.28
Warning! 1995 characters in sequence are not A, C, G, or T
Found at i:305 original size:172 final size:168
Alignment explanation
Indices: 5--512 Score: 491
Period size: 171 Copynumber: 3.0 Consensus size: 168
1 AGAT
* *
5 TATAAAACCATTTAAAGCAAGTAATTAGGCTTTT-AAAGGCATGGGTGACTCTAAATGGACTTTT
1 TATAAAACCATTTAAAGCAAGTAATTAGGCTTTTGAAA-GCATGGGTAACTATAAAT-GACTTTT
* * ** * * ** * *
69 CTCATTAATGAATAGTTTTTTCTTCACATTTATTAATGTAGACATTCAATTATATTCCGTTTTAA
64 CTTATCAATGAAT-GGCTTTTCTTTACGTTTCCTAA-GTAGACATTCAATTATAATCTGTTTTAA
* **
134 CAAAAGAATGTAAAAAAATTCAACGTAAAATCAATTATGAGNN
127 CAAAA-AATGTAAAAAAATTCAACATAAAATCAATTATGAGAC
******** * * *
177 NNNNNNNNCATTTAAAGCGAGTAATTAGGCTTTTGAAAGCATGGGTAAGTATAAATAGACATTTC
1 TATAAAACCATTTAAAGCAAGTAATTAGGCTTTTGAAAGCATGGGTAACTATAAAT-GACTTTTC
* *
242 TTATCAATGAATGGCTTTTACTTTATGTTTCCTGAGCTAGACATTCAATTATAATCTGTTTTAAC
65 TTATCAATGAATGGCTTTT-CTTTACGTTTCCTAAG-TAGACATTCAATTATAATCTGTTTTAAC
* *
307 TAAAAATGTACAAAAATTCAACATAAAATCAATTATGAGAC
128 AAAAAATGTAAAAAAATTCAACATAAAATCAATTATGAGAC
* * * * *
348 TATAAAACCATTTAAACCAAGTAATTAAGCTTTCG-AAGACACGCGTAACTATAAATGAACTTTT
1 TATAAAACCATTTAAAGCAAGTAATTAGGCTTTTGAAAG-CATGGGTAACTATAAATG-ACTTTT
* * * * *
412 CTTACCATTGAATGGCTTTT-TTCTCAGGTTTCCCAAGGTAGACATTCAATTATAATTTGTTTTA
64 CTTATCAATGAATGGCTTTTCTT-T-ACGTTTCCTAA-GTAGACATTCAATTATAATCTGTTTTA
* * *
476 ACCAAAAATGTAACAAAATTCAACCTAAAATCAATTA
126 ACAAAAAATGTAAAAAAATTCAACATAAAATCAATTA
513 NNNNNNNNNN
Statistics
Matches: 271, Mismatches: 57, Indels: 17
0.79 0.17 0.05
Matches are distributed among these distances:
169 2 0.01
170 5 0.02
171 165 0.61
172 96 0.35
173 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.34
Consensus pattern (168 bp):
TATAAAACCATTTAAAGCAAGTAATTAGGCTTTTGAAAGCATGGGTAACTATAAATGACTTTTCT
TATCAATGAATGGCTTTTCTTTACGTTTCCTAAGTAGACATTCAATTATAATCTGTTTTAACAAA
AAATGTAAAAAAATTCAACATAAAATCAATTATGAGAC
Found at i:978 original size:171 final size:170
Alignment explanation
Indices: 545--2156 Score: 1350
Period size: 171 Copynumber: 9.4 Consensus size: 170
535 NNNNCTTTAT
* * * * *
545 GTTTCCCATGGTAGACATTCAATTATAATCTATTTTTA--AAAAATGTACAAAAATTCAACCTAA
1 GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTA-AAAAATTCAACTTAA
* * * * ** * ** *
608 AATCAATTATGAAATTATAAAACTATTTAAACTGAGTAATAAAGCTTAAGAAGGTATGCGTAACT
65 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATGAATGACT
* * * * *
673 ATAAATGAACTTTACTTACCATTGAATGGCTTTTTCCTCA-
130 ATAAATGGACTTTTCTTATCAATGAATGGCTTTTTCTTCAC
* * * *
713 GATTTCTCAAGGTAGGCATTCAATTATAATCTGTTTTAAAC-AAAATGAAAAAACATTCAACTTA
1 GTTTTC-CAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAA-ATTCAACTTA
* * * *
777 AAGTTAATTATGAGATTATAAATCCATTTAAAGTGAGTAATAAGGCTTTTGAAGACATGAATGAC
64 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATGAATGAC
**
842 TATAAATGGACTTTTCTTATCAATGAATATCTTTTTACTT-AC
129 TATAAATGGACTTTTCTTATCAATGAATGGCTTTTT-CTTCAC
* * * * *
884 G-TTTCCAGAGGTAGACATTCAATTATTATCTATTTTAACCAACAATGTAAAAAATTTTATCTTA
1 GTTTTCCA-AGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAA-TTCAACTTA
** * * ** * *
948 AAGGCAATTATGAGATTATAAAACCATTTAAAGCGAATAATAAGAATTTTGAAGGCATGGATAAC
64 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATGAATGAC
**
1013 TATAAATGGACTTTTCTTATCAATGAATATCTTTTTACTT-AC
129 TATAAATGGACTTTTCTTATCAATGAATGGCTTTTT-CTTCAC
* *
1055 G-TTTCCAGAGGTAGACATTCAATTATTATCTATTTTAACCAAAAATGTGAAAAAATTCAACTTA
1 GTTTTCCA-AGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAAATTCAACTTA
* * * *
1119 GAATCAATTATGGGATTATAAAACCATTTAAAGTAAGTAATAAGGCTTTTGTAGGCAT-AAGTGA
64 AAATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATGAA-TGA
* *
1183 GTATAAATGGACTTTT-TTCATCAATAAATGGCTTTTTCTTCAC
128 CTATAAATGGACTTTTCTT-ATCAATGAATGGCTTTTTCTTCAC
* * * * * * * ** *
1226 -ATTACTCGAGGTAGGCATTTAATTATAATCTATTTTAACGAAAAATAAAAAAAAATTGAACTTA
1 GTTTTC-CAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAAT-GTAAAAAATTCAACTTA
* * * * * * *
1290 AAGTCAATTATGAGATTATACAA-TATTCTAAAGCGAATAATAAGGC-TTTGAAAGGTAT-AGGT
64 AAATCAATTATGAGATTATAAAACCATT-TAAAGTGAGTAATAAGGCTTTTG-AAGGCATGA-AT
* ** *
1352 GACTATAAATGGACTTTTCTTATCAATAAATATCTTTTTCTTCAT
126 GACTATAAATGGACTTTTCTTATCAATGAATGGCTTTTTCTTCAC
* * * * * * * * *
1397 GTTTCCCGAGGAAGACATTCAATTATAATATGTTTTTACAAAAAATATAAAACAATTTAACCTAA
1 GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAA-AATTCAACTTAA
* * ** * ** *
1462 AATGAATTATGAGATTATAAAATCAAGTAACA-CGAGTAATAAGGCTTCCGAAGGCTTCG-ATGA
65 AATCAATTATGAGATTATAAAACCATTTAA-AGTGAGTAATAAGGCTTTTGAAGGCAT-GAATGA
* **
1525 CTATAAATGAACTTTGT-TTGCCAATGAATGGCTTTTTCTTCAC
128 CTATAAATGGACTTT-TCTTATCAATGAATGGCTTTTTCTTCAC
* * * *
1568 GTTTTCTAAGGTAGACATTCAATTATGATCTGTTTTAACAAAAAATGTACAAAAATTCAACCTAA
1 GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTA-AAAAATTCAACTTAA
* * * * * * ** *
1633 AATCAATAATGAGATTATAAAACCATTTAAACTAAGTAATTAA--ATGTTTAAAGGTATGTGTAA
65 AATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAA-TAAGGCT-TTTGAAGGCATGAATGA
* * * * *
1696 CTATCAATGAACTTTTCTTA-CTATCGAATGGCTTTTTCCTCAG
128 CTATAAATGGACTTTTCTTATCAAT-GAATGGCTTTTTCTTCAC
* * *
1739 GTTTTCCAAGGTCGATATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAAAAATTCAACCT
1 GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT---AAAAAATTCAACTT
* * **
1804 AAAATCAATTATGAGATTATAAAACCATTTAAA-TCGAGTAATTCA-GCTTTTAAAGGCATGGGT
63 AAAATCAATTATGAGATTATAAAACCATTTAAAGT-GAGTAA-TAAGGCTTTTGAAGGCATGAAT
1867 GACTATAAATGGACTTTTCTTA-CTAATGAATGGCTTTTTCTTCAC
126 GACTATAAATGGACTTTTCTTATC-AATGAATGGCTTTTTCTTCAC
* * * * *
1912 GTTTTCTAAAGTAGACATTCAATTATAATCTGTTTTCA-CAGAAAA-GATAAAAAAATCAACTTG
1 GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCA-AAAATG-TAAAAAATTCAACTTA
* * * * * ** **
1975 AAATCAATTATCG-GATTCTAAAACTATTTAGAGCGAGCAATAAGGCTTTCAAAGGCATGGGTGA
64 AAATCAATTAT-GAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATGAATGA
* ** * ** *
2039 CTACAAATGGACTTTTCTTGCCAATAAATACCTTTTTCTTCAT
128 CTATAAATGGACTTTTCTTATCAATGAATGGCTTTTTCTTCAC
* ** * * * * * ** * **
2082 GTTTCCCAAGACAAACAATAAATTGTAATTTGTTTCCACAAAAAATGTAAAAAAATTCAACCAAA
1 GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGT-AAAAAATTCAACTTAA
*
2147 AAACAATTAT
65 AATCAATTAT
2157 AAGNNNNNNN
Statistics
Matches: 1189, Mismatches: 205, Indels: 97
0.80 0.14 0.07
Matches are distributed among these distances:
168 4 0.00
169 36 0.03
170 286 0.24
171 692 0.58
172 27 0.02
173 140 0.12
174 4 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (170 bp):
GTTTTCCAAGGTAGACATTCAATTATAATCTGTTTTAACCAAAAATGTAAAAAATTCAACTTAAA
ATCAATTATGAGATTATAAAACCATTTAAAGTGAGTAATAAGGCTTTTGAAGGCATGAATGACTA
TAAATGGACTTTTCTTATCAATGAATGGCTTTTTCTTCAC
Found at i:1552 original size:513 final size:504
Alignment explanation
Indices: 545--1965 Score: 1529
Period size: 513 Copynumber: 2.8 Consensus size: 504
535 NNNNCTTTAT
* * *
545 GTTTCCCATGGTAGACATTCAATTATAATCTATTTTTA-AAAAATGTACAAAAATTCAACCTAAA
1 GTTTTCCAAGGTAGACATTCAATTATAATCTATTTTAACAAAAATGTACAAAAATTCAACCTAAA
* * * ** *
609 ATCAATTATGAAATTATAAAACTATTTAAACTGAGTAATAAAGCTTAAGAAGGTATGCGTAACTA
66 ATCAATTATGAGATTATAAAACCATTTAAACTAAGTAAT-AAGCTTTTGAAGGTATGAGTAACTA
* *
674 TAAATGAACTTTACTTACCATTGAATGGCTTTTTCCTCAGATTTCTCAAGGTAGGCATTCAATTA
130 TAAATGAACTTT-TTTA-CAATGAATGGCTTTTTCCTCAGA-TTCTCAAGGTAGGCATTCAATTA
* * *
739 TAATCTGTTTTAA-ACAAAATGAAAAAACATTCAACTTAAAGTTAATTATGAGATTATAAATCCA
192 TAATCTGTTTTAACA-AAAATAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAAT--A
* * *
803 TTTAAAGTGAGTAATAAGGCTTTTG-AAGACATGAATGACTATAAATGGACTTTTCTTATCAATG
254 TTTAAAGCGAGTAATAAGGC-TTTGAAAGGCATG-GTGACTATAAATGGACTTTTCTTATCAATG
* * * * *
867 AATATCTTTTTACTT-ACGTTTCCAGAGGTAGACATTCAATTATTATCTATTTTAACCAACAATG
317 AATATCTTTTT-CTTCACGTTTCCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATA
* * * **
931 TAAAAAATTTTATCTTAAAGGCAATTATGAGATTATAAAACCATTTAAAGCGAATAATAAGAATT
381 TAAAAAATTTAACCTAAAAGGCAATTATGAGATTATAAAACCAAGTAAAGCGAATAATAAGAATT
** * * * *
996 TTGAAGGCATGGATAACTATAAATGGACTTTTCTTATCAATGAATATCTTTTTACTT-AC
446 CCGAAGGCATCGATAACTATAAATGAACTTTTCTTACCAATGAATAGCTTTTT-CTTCAC
* *
1055 G-TTTCCAGAGGTAGACATTCAATTATTATCTATTTTAACCAAAAATGTGA-AAAAATTCAACTT
1 GTTTTCCA-AGGTAGACATTCAATTATAATCTATTTTAA-CAAAAATGT-ACAAAAATTCAACCT
* * * * * * *
1118 AGAATCAATTATGGGATTATAAAACCATTTAAAGTAAGTAATAAGGCTTTTGTAGGCATAAGTGA
63 AAAATCAATTATGAGATTATAAAACCATTTAAACTAAGTAATAA-GCTTTTGAAGGTATGAGTAA
* * * * * * *
1183 GTATAAATGGACTTTTTTCATCAATAAATGGCTTTTTCTTCACATTACTCGAGGTAGGCATTTAA
127 CTATAAATGAACTTTTTT-A-CAATGAATGGCTTTTTCCTCAGATT-CTCAAGGTAGGCATTCAA
* *
1248 TTATAATCTATTTTAACGAAAAATAAAAAAAAATTGAACTTAAAGTCAATTATGAGATTATACAA
189 TTATAATCTGTTTTAAC-AAAAATAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATA-AA
* *
1313 TATTCTAAAGCGAATAATAAGGCTTTGAAAGGTATAGGTGACTATAAATGGACTTTTCTTATCAA
252 TATT-TAAAGCGAGTAATAAGGCTTTGAAAGGCAT-GGTGACTATAAATGGACTTTTCTTATCAA
* * * * * *
1378 TAAATATCTTTTTCTTCATGTTTCCCGAGGAAGACATTCAATTATAATATGTTTTTACAAAAAAT
315 TGAATATCTTTTTCTTCACGTTTCCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAAT
* * * *
1443 ATAAAACAATTTAACCTAAAATG-AATTATGAGATTATAAAATCAAGTAACA-CGAGTAATAAGG
380 ATAAAA-AATTTAACCTAAAAGGCAATTATGAGATTATAAAACCAAGTAA-AGCGAATAATAAGA
* * * * *
1506 CTTCCGAAGGCTTCGATGACTATAAATGAACTTTGT-TTGCCAATGAATGGCTTTTTCTTCAC
443 ATTCCGAAGGCATCGATAACTATAAATGAACTTT-TCTTACCAATGAATAGCTTTTTCTTCAC
* * *
1568 GTTTTCTAAGGTAGACATTCAATTATGATCTGTTTTAACAAAAAATGTACAAAAATTCAACCTAA
1 GTTTTCCAAGGTAGACATTCAATTATAATCTATTTTAAC-AAAAATGTACAAAAATTCAACCTAA
* * * *
1633 AATCAATAATGAGATTATAAAACCATTTAAACTAAGTAATTAA-ATGTTTAAAGGTATGTGTAAC
65 AATCAATTATGAGATTATAAAACCATTTAAACTAAGTAA-TAAGCT-TTTGAAGGTATGAGTAAC
* * * * * **
1697 TATCAATGAACTTTTCTTACTATCGAATGGCTTTTTCCTCAGGTTTTCCAAGGTCGATATTCAAT
128 TATAAATGAACTTTT-TTACAAT-GAATGGCTTTTTCCTCAGATTCT-CAAGGTAGGCATTCAAT
* *
1762 TATAATCTGTTTTAACCAAAAATGTAAAAAAAAATTCAACCTAAAATCAATTATGAGATTATAAA
190 TATAATCTGTTTTAA-CAAAAA--TAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTAT-AA
* * * *
1827 ACCATTTAAATCGAGTAATTCA-GCTTTTAAAGGCATGGGTGACTATAAATGGACTTTTCTTA-C
251 A-TATTTAAAGCGAGTAA-TAAGGCTTTGAAAGGCAT-GGTGACTATAAATGGACTTTTCTTATC
** * * * *
1890 TAATGAATGGCTTTTTCTTCACGTTTTCTA-AAGTAGACATTCAATTATAATCTGTTTTCACAGA
313 -AATGAATATCTTTTTCTTCACG-TTTCCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAA
*
1954 AAAGATAAAAAA
376 AAATATAAAAAA
1966 ATCAACTTGA
Statistics
Matches: 756, Mismatches: 121, Indels: 64
0.80 0.13 0.07
Matches are distributed among these distances:
509 5 0.01
510 28 0.04
511 6 0.01
512 153 0.20
513 381 0.50
514 33 0.04
515 140 0.19
516 10 0.01
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (504 bp):
GTTTTCCAAGGTAGACATTCAATTATAATCTATTTTAACAAAAATGTACAAAAATTCAACCTAAA
ATCAATTATGAGATTATAAAACCATTTAAACTAAGTAATAAGCTTTTGAAGGTATGAGTAACTAT
AAATGAACTTTTTTACAATGAATGGCTTTTTCCTCAGATTCTCAAGGTAGGCATTCAATTATAAT
CTGTTTTAACAAAAATAAAAAAAAATTCAACTTAAAGTCAATTATGAGATTATAAATATTTAAAG
CGAGTAATAAGGCTTTGAAAGGCATGGTGACTATAAATGGACTTTTCTTATCAATGAATATCTTT
TTCTTCACGTTTCCAGAGGTAGACATTCAATTATAATCTGTTTTAACAAAAAATATAAAAAATTT
AACCTAAAAGGCAATTATGAGATTATAAAACCAAGTAAAGCGAATAATAAGAATTCCGAAGGCAT
CGATAACTATAAATGAACTTTTCTTACCAATGAATAGCTTTTTCTTCAC
Found at i:9707 original size:171 final size:169
Alignment explanation
Indices: 9254--11169 Score: 1295
Period size: 171 Copynumber: 11.3 Consensus size: 169
9244 TTAGTCATTG
* * *
9254 TAAATAGTTTTATAATCTCATAATTAATTTTAGGTTGAATTTTTTTACATTTTTAGTTAAAACAG
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
* * * * * ** *
9319 ATTATAATTGAATGTTTGTCTTAGGAAACATGAAGAAAAAACTATTCATTGGCAAGTAAAGTCTA
66 ATTATAATTGAATGTCT-ACCTAGGAAACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTCCA
* * * * * * * * *
9384 TTCATAGTTACCCAAGCTTTCAAAATCGTAATTACTCGCTT
130 TTTATAGTCACCCATGCCTT-GAAAGCCTTATTACTAGCTT
* * * * * *
9425 TGAATGGTTTTATAATCTCGTAATTGATTTTATGTTGAGTTTTTTTTACATTTTTAGTTAAAATA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGA-ATTTTTTTACATTTTTGGTTAAAACA
* * * * *
9490 GATTATAATTGAATGTCTACCTTGGAGAACGTGAGGAAACAGCCATTCATTGGTAAAAAAAGTCC
65 GATTATAATTGAATGTCTACCTAGGA-AACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTCC
* * * *
9555 ATTTATAGTCATCCATGCACTTGAAAGTCTTATTACGAGATT
129 ATTTATAGTCACCCATGC-CTTGAAAGCCTTATTACTAGCTT
* * * *
9597 TAAATGGTTTTATAA-CTTCATAATTAATTTAAAGTTGAATTTTTTCT-CTTTTTTGGTTAAAAC
1 TAAATGGTTTTATAATC-TCATAATTGATTTTAGGTTGAATTTTTT-TACATTTTTGGTTAAAAC
* * * * * *
9660 AGATTATAACTAAATATCTACCTCAAGAAACATGAAGAAAAAGCCATTAATTGATC-AAAAAAGT
64 AGATTATAATTGAATGTCTACCT-AGGAAACATGAAGAAAAAGCCATTCATTG-GCAAAAAAAGT
* * * * * *
9724 CTATTTCTAGTCACTCAAGCCTTTGAAAGCCTAATTACTCA-TTT
127 CCATTTATAGTCACCCATGCC-TTGAAAGCCTTATTACT-AGCTT
* * * * * *
9768 TAAATAGTTTTATAATCTTATAATTGATTTTAGGTTGATTTTGTTTTACATTTTTAGTTAAGATA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTT-TTTTACATTTTTGGTTAAAACA
* * * **
9833 GATTATAATTCAATGTCTGCCTTGGAAAACAT-AA-AAAAAGCCATTCATTGGCAAGTAAAGTCC
65 GATTATAATTGAATGTCTACCTAGG-AAACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTCC
* *
9896 ATTTATAGTTACCCATGCC-T---A-----ATTACTCGCTT
129 ATTTATAGTCACCCATGCCTTGAAAGCCTTATTACTAGCTT
* * * * *
9928 TGAATGGTTTTATAATCTCATAATTGATTTTATGATGAATATTTTTACATTTTTTGTTAAAACAG
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
* * * * * **
9993 ATTATAATTGAATATTTACCTTGGGAACTATGAAGAAACAA-CCCTTCATTAACAAAAAAAGNNN
66 ATTATAATTGAATGTCTACCTAGGAAAC-ATGAAGAAA-AAGCCATTCATTGGCAAAAAAAG---
*******************************************
10057 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNT
126 -TCCATTTATAGTCACCCATGCCTTGAAAGCCTTATTACTAGCTT
* * * * * *
10102 TAAATGGTTTTATAACCTCATAATTAATTTTAAGTTCAA-TTTTTTATATTTTTGGTCAAAACAG
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
* * * * * * * * *
10166 ATTATAATTGAATATCTACCTTAAGAAACGTGAAGAAAACGTCATTTATTGACGAGAAAAGTCCA
66 ATTATAATTGAATGTCTACC-TAGGAAACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTCCA
* * * * *
10231 TTTCTAGTCA-CCAAGCATTTGAAAGCCTAATTACTCGCTT
130 TTTATAGTCACCCATGC-CTTGAAAGCCTTATTACTAGCTT
* *
10271 TAAATGATTTTATAATGTCATAATTGATTTTAGG-TGAAATTTTTTTACATTTTTAGG-T-AAAC
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTG-AATTTTTTTACATTTTT-GGTTAAAAC
* * ** * **
10333 AGATTATAATTGAAAGTCTACCTCAGGAAACATGAAAAAAAAATCATTCATTAGCAAAGAATGGT
64 AGATTATAATTGAATGTCTACCT-AGGAAACATGAAGAAAAAGCCATTCATTGGCAAA-AAAAGT
* * * *
10398 CC-TTTATAGTTACCCATGCCTTCAAAAGCCTAATTATTCA-CTT
127 CCATTTATAGTCACCCATGCCTT-GAAAGCCTTATTACT-AGCTT
* * * *
10441 TAAATGGTTTTATAATGTCATAATTGATTTTAGGTTGAATATTTTTACAGTTTTGGTTAAAATAG
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
* ** * * * *
10506 ATTGTAATTGAATGAT-TGGCTCAAGAAACATGAAGAAAAAGGC-TATCATTGGCTACAAAAGTC
66 ATTATAATTGAATG-TCTACCT-AGGAAACATGAAGAAAAAGCCAT-TCATTGGCAAAAAAAGTC
* * *
10569 CATTTAAAGTCACCCATGCTTTTGAAAGCCTTATTACTCA-ATT
128 CATTTATAGTCACCCATGC-CTTGAAAGCCTTATTACT-AGCTT
* * * ** *
10612 TAAATGATTTTATAATTTCATAATTGATTTTACGTTGAATTTTTTTACATTTTTTATTAAAACAT
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
* * * * * * *
10677 ATTATAATTGATTCTCTACCTTAGAAAACCT-AAGGAAAAAGCCATTTATTGGTAAGAAAAGTCC
66 ATTATAATTGAATGTCTACC-TAGGAAACATGAA-GAAAAAGCCATTCATTGGCAAAAAAAGTCC
* ** * *
10741 ATTTATAGTTACATATGCCTTCAAAAG-CTTAATTACTCGCTT
129 ATTTATAGTCACCCATGCCTT-GAAAGCCTT-ATTACTAGCTT
** * *
10783 TAAATAATTTTATAATATCATAATTGATTTTAGGTTGAATTTTTTTACCA-TTTTGGTTAAAATA
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTA-CATTTTTGGTTAAAACA
** * * ** * *
10847 GATTGCAATTAAATGTCT-CCATTGGGAAACATGAAGAAAAAGCCATTTGTTGGCAAGAAAAGTA
65 GATTATAATTGAATGTCTACC--TAGGAAACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTC
* * * ** *
10911 CATTTATAGTTATCCATGCCTTCAAA-TTTGTAATTACTTGCTT
128 CATTTATAGTCACCCATGCCTTGAAAGCCT-T-ATTACTAGCTT
* ** * *
10954 TAAATGGTTTTATAATCTCATAATTGATTTTAGGATGAATTTTTTTATGTTTTTGGTGAAAATAG
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
* *
11019 ATTATAATTGAATGTCTCCCTTAGGAAACATGAAGAAAAAGGCATTCATTGGCAAAAAAAGTCCA
66 ATTATAATTGAATGTCTACC-TAGGAAACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTCCA
* *
11084 TTTATAGTCACCCATGCCTTTAAAAGCCTTATCAC-ACGCTT
130 TTTATAGTCACCCATGCC-TTGAAAGCCTTATTACTA-GCTT
* *
11125 TAAATGGTTTTATAATCTCATAATTAATTTTAAGTTGAATTTTTT
1 TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTT
11170 A
Statistics
Matches: 1338, Mismatches: 340, Indels: 134
0.74 0.19 0.07
Matches are distributed among these distances:
158 3 0.00
159 42 0.03
160 45 0.03
161 18 0.01
162 2 0.00
165 1 0.00
168 3 0.00
169 93 0.07
170 148 0.11
171 689 0.51
172 190 0.14
173 65 0.05
174 39 0.03
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.38
Consensus pattern (169 bp):
TAAATGGTTTTATAATCTCATAATTGATTTTAGGTTGAATTTTTTTACATTTTTGGTTAAAACAG
ATTATAATTGAATGTCTACCTAGGAAACATGAAGAAAAAGCCATTCATTGGCAAAAAAAGTCCAT
TTATAGTCACCCATGCCTTGAAAGCCTTATTACTAGCTT
Done.