Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011918.1 Corchorus olitorius cultivar O-4 contig11951, 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, 690
Length: 1151
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Found at i:286 original size:154 final size:154
Alignment explanation
Indices: 6--1151 Score: 1869
Period size: 154 Copynumber: 7.4 Consensus size: 154
1 TTTTA
* * * *
6 GAGATATGTCCACTGTGAAATTTTTAGCTCATTTGGAACCCTTGTAATTTTGGGCGTTTCGGGGC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
* ** *
71 CCATTAGTACCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCCATTCTATCCATTGTTTA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
136 TGGCCTAACTATAATCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
* * *
160 GAGATATGTCCACTGTGAAATTTTTAGCTCATTTGGAACACTTGTTATTTTGGGTCTTTCCGGGC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
** * *
225 CCATTAGTTCAATTTTGAATCGACTTCGATTTGGCAAACCTCAAAACTTTTCTTTCTATTGTTTA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
**
290 TGAACTAACTATAATCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
*
314 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGATATTTTGGGCCTTTCGGGGC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
* * *
379 CCATCAGTTCCATTTTGAATCGACTTTGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
444 TGGCCTAACTATAATCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
** *
468 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCTTGGA
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
533 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
*
598 TGGACTAACTATAATCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
* * * *
622 GTGATATGTCCACTGTGAAGTTTTTAACTCATTTGGAACAATTGTAATTTTGGGCCTTTCGGGGC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
*
687 CCATTAGATCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
* *
752 TGGACTAACTATAACCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
* *
776 GTGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTCTTATTTTGGGCCTTTCGGGGC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
* * *
841 ACATCAGTTCCATTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
906 TGGCCTAACTATAATCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
* * * *
930 GAGATATGTCCACTCTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCGTACGGGAC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
* *
995 CCATTAGATCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTATA
66 CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
1060 TGGCCTAACTATAATCATTTTGGT
131 TGGCCTAACTATAATCATTTTGGT
* * * *
1084 GAGATATGTCCACTGTGAAGTTTTTAGATCATTTGGAACAATTGTAATTTTGGACCTTTCGGGGC
1 GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
1149 CCA
66 CCA
Statistics
Matches: 920, Mismatches: 72, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
154 920 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (154 bp):
GAGATATGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTTGGGCCTTTCGGGGC
CCATTAGTTCCGTTTTGAATCGACTTCGATTTGGCAAACCTCAAAGCTTTTCTTTCCATTGTTTA
TGGCCTAACTATAATCATTTTGGT
Done.