Locus 6778

Sequence ID	3R_DroMel_CAF1
Location	17,883,442 – 17,883,556
Length	114
Max. P	0.818188

overview

Window 5

Location	17,883,442 – 17,883,556
Length	114
Sequences	4
Columns	114
Reading direction	reverse
Mean pairwise identity	94.59
Mean single sequence MFE	-23.75
Consensus MFE	-20.50
Energy contribution	-20.62
Covariance contribution	0.12
Combinations/Pair	1.09
Mean z-score	-1.93
Structure conservation index	0.86
SVM decision value	0.67
SVM RNA-class probability	0.818188
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17883442 114 - 27905053
ACCAGGAGCCAAAAACCAAGUGCUCCUUAGAGCGUAAAAUCAUCGAAAUAUAAAUGCUCCUGAUCACAAAGGAAACAAGUGAAAUGAAAUGCAGACAAGCGAACACUGUACAAA
..(((((((............((((....))))(......)..............))))))).((((...(....)..)))).......(((((...........))))).... ( -23.40)
>DroSec_CAF1 25001 114 - 1
ACCAGGAGCCAAAGACCAAGUGCUCCUUAGAGCGUAUAGUCAUUGAAAUAUAAAUGCUCCUGAUCACAAAGGAAACAUCUGAAAUGAAAUGCAGACAAGCGAACACUGUGCAAA
..((((((((((.(((.(..(((((....)))))..).))).)))..........)))))))..((((..(....).((((..........))))...........)))).... ( -26.80)
>DroSim_CAF1 26871 114 - 1
ACCAGGAGCCAAAGACCAAGUGCUCCUUAGAGCGUAUAAUCAUCGAAAUAUAAAUGCUCCUGAUCACAAAGGAAACAACCGAAAUGAAAUGCAGACAAGCGAACACUGUGCAAA
..(((((((............((((....))))((((..........))))....)))))))..((((..(....).............(((......))).....)))).... ( -22.20)
>DroYak_CAF1 26371 113 - 1
ACCAGGAGCCAAAGACCAAGUGCUCCUUAGAGCGUAUAAUCAUCGAAAUACAAAUGUUCCUGAUCACAAAGGGAACAAGUGAAA-GAAAUGCAGACAAGCGAACACUGUGCAAA
...(((((((.........).))))))......(((((....((......((..(((((((.........)))))))..))...-.....((......))))....)))))... ( -22.60)
>consensus
ACCAGGAGCCAAAGACCAAGUGCUCCUUAGAGCGUAUAAUCAUCGAAAUAUAAAUGCUCCUGAUCACAAAGGAAACAACUGAAAUGAAAUGCAGACAAGCGAACACUGUGCAAA
..(((((((............((((....))))((((..........))))....)))))))..((((..(....).............(((......))).....)))).... (-20.50 = -20.62 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:43 2006