Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397721.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_102.0, 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, 867
Length: 1445
ACGTcount: A:0.20, C:0.08, G:0.07, T:0.23
Warning! 624 characters in sequence are not A, C, G, or T
Found at i:1248 original size:170 final size:168
Alignment explanation
Indices: 958--1445 Score: 631
Period size: 170 Copynumber: 2.9 Consensus size: 168
948 NNNNNNTCTT
* *
958 ATAATTAATTTTAAGTTGAATTTTTTTACATTTTTTGTTAAAACAAACTATACTTGATTGTCTAC
1 ATAATTGATTTTAAGTTGAATTTTTTTACATTTTTT-TTAAAACAAACTATAATTGATTGTCTAC
* * *
1023 CTTGAGAAACGTGCAGAAAAAGTCATTCATTGAGAAGAAAAGTCAATTTAGAGTCACTCATTCCT
65 CTCGAGAAACGTGAAGAAAAAG-CATTCATTGACAAGAAAAGTC-ATTTAGAGTCACTCATTCCT
* *
1088 TGAAAAAGCTTATTACTCGCTTTCA-ACGGTTTTATAATCCC
128 TCAAAAAGCTTATTACTCGCTTT-ATACGGTTTTATAATCCA
* * * *
1129 ATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTTTCAAACAGACTATAATTGAATCTCTACC
1 ATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTTTAAAACAAACTATAATTGATTGTCTACC
** * * *
1194 TCGAGAAATATGAATAAACAAGCATTCATTGATAAGAAAAGTACATTTAGAGTCAATCATTCCTT
66 TCGAGAAACGTGAAGAAA-AAGCATTCATTGACAAGAAAAGT-CATTTAGAGTCACTCATTCCTT
* *
1259 CAAAAAGCTTATTACTCGCTTTATATGGTTTTATAATCTA
129 CAAAAAGCTTATTACTCGCTTTATACGGTTTTATAATCCA
* *
1299 ATAATTGATTTTAAGTTGAATTGTTTTACATTTTTGATTAAAA-AATACTATAATTGATTGTCTA
1 ATAATTGATTTTAAGTTGAATTTTTTTACATTTTT-TTTAAAACAA-ACTATAATTGATTGTCTA
* * * *
1363 CCTCAACAAACGTGTAGAAATAAGCATTCATT-AGCAAGAAAAGTCCATTTAGAGTCACCCATTC
64 CCTCGAGAAACGTGAAGAAA-AAGCATTCATTGA-CAAGAAAAGT-CATTTAGAGTCACTCATTC
*
1427 CTTCAAAAGGCTTATTACT
126 CTTCAAAAAGCTTATTACT
Statistics
Matches: 276, Mismatches: 35, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
169 1 0.00
170 146 0.53
171 129 0.47
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.38
Consensus pattern (168 bp):
ATAATTGATTTTAAGTTGAATTTTTTTACATTTTTTTTAAAACAAACTATAATTGATTGTCTACC
TCGAGAAACGTGAAGAAAAAGCATTCATTGACAAGAAAAGTCATTTAGAGTCACTCATTCCTTCA
AAAAGCTTATTACTCGCTTTATACGGTTTTATAATCCA
Done.