Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017519.1 Corchorus olitorius cultivar O-4 contig17552, 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, 698
Length: 1164
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.35
Found at i:976 original size:210 final size:212
Alignment explanation
Indices: 446--1164 Score: 1241
Period size: 213 Copynumber: 3.4 Consensus size: 212
436 ATGCATTATA
*
446 CAAAATTCAGTATCCCCAAAGTAATATACTTTATACCCAAATTGTTTCTCATCATCCCCAAATAA
1 CAAAATTCAGTATCCCCAAAGTAATATACTTTATACCCAAATTATTTCTCATCATCCCCAAATAA
*
511 TCATATGCACCATCCCCAAATTCTTTAGAGATGGACATTTGTTCTCATATA-CACAAAATTGACT
66 TCATATGCACCATCCCCAAATTCTTTAGAGATGGACATTTTTTCTCATATACCA-AAAATTGACT
*
575 TTAAAAGGTGTTTTAATACATATATTAATTGAATATATCCCCGTCTATATGATTTTAGTGCCAAT
130 TTAAAAGGTGTTTTAATCCATATATTAATTGAATATATCCCCGTCTATATGATTTTAGTGCC-AT
640 CTAATAATTGAACAAAATG
194 CTAATAATTGAACAAAATG
*
659 CAAAATTCAGTATCCCCAAAATAATATACTTTATACCCAAATTATTTCTCATCATCCCCAAATAA
1 CAAAATTCAGTATCCCCAAAGTAATATACTTTATACCCAAATTATTTCTCATCATCCCCAAATAA
724 TCATATGCACCATCCCCAAATTCTTTAGAGATGGACATTTTTTCTCATATACCAAAAATTCGA-T
66 TCATATGCACCATCCCCAAATTCTTTAGAGATGGACATTTTTTCTCATATACCAAAAATT-GACT
*
788 TTAAAAGGTGTTTTAATCCATACATTAATTGAATATATCCCCGTCTATATGA-TTTAGTGCCATC
130 TTAAAAGGTGTTTTAATCCATATATTAATTGAATATATCCCCGTCTATATGATTTTAGTGCCATC
*
852 TAATAATTGGACAAAATG
195 TAATAATTGAACAAAATG
* *
870 CAAAATTCACTAT-CCCAAAGTAATATACTTTATACCCTAATTATTTCTCATCATCCCCAAATAA
1 CAAAATTCAGTATCCCCAAAGTAATATACTTTATACCCAAATTATTTCTCATCATCCCCAAATAA
*
934 TCATATGCACCATCCCCAAAATCTTTAGAGATGGACATTTTTTCTCATATACCAAAAATTGACTT
66 TCATATGCACCATCCCCAAATTCTTTAGAGATGGACATTTTTTCTCATATACCAAAAATTGACTT
*
999 TAAAAGGTGTTTTAATCCATATATTAATTTAATATATCCCCGTCTATATGATTTTAGTGCCATCT
131 TAAAAGGTGTTTTAATCCATATATTAATTGAATATATCCCCGTCTATATGATTTTAGTGCCATCT
*
1064 AATAATT-AAAATAAATG
196 AATAATTGAACA-AAATG
* * *
1081 TAAAATTTAGTATCCCCAAAGTAATATACTTTATACCCAAATTATTTCTCATCATCCCCAATTAA
1 CAAAATTCAGTATCCCCAAAGTAATATACTTTATACCCAAATTATTTCTCATCATCCCCAAATAA
1146 TCATATGCACCATCCCCAA
66 TCATATGCACCATCCCCAA
Statistics
Matches: 481, Mismatches: 19, Indels: 13
0.94 0.04 0.03
Matches are distributed among these distances:
209 2 0.00
210 161 0.33
211 67 0.14
212 77 0.16
213 170 0.35
214 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (212 bp):
CAAAATTCAGTATCCCCAAAGTAATATACTTTATACCCAAATTATTTCTCATCATCCCCAAATAA
TCATATGCACCATCCCCAAATTCTTTAGAGATGGACATTTTTTCTCATATACCAAAAATTGACTT
TAAAAGGTGTTTTAATCCATATATTAATTGAATATATCCCCGTCTATATGATTTTAGTGCCATCT
AATAATTGAACAAAATG
Done.