Locus 328

Sequence ID 3R_DroMel_CAF1
Location 1,253,263 – 1,253,374
Length 111
Max. P 0.763081
window551

overview

Window 1

Location 1,253,263 – 1,253,374
Length 111
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 86.49
Mean single sequence MFE -30.00
Consensus MFE -23.21
Energy contribution -24.53
Covariance contribution 1.31
Combinations/Pair 1.09
Mean z-score -1.76
Structure conservation index 0.77
SVM decision value 0.51
SVM RNA-class probability 0.763081
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1253263 111 + 27905053
UGAGCUGGCAGAGUUAUGUGUCCACAUGACUGUCGAAUCGAUAUUCUUCACAUAUGUAUAUAUGUAUGUACAUCAUGUUGUGUGGAUUUAC-CCACGGAAGUGGAUUAAUUU
......((((..(((((((....)))))))))))(((((.((((.....((((((((((((....)))))))).)))).)))).)))))..-((((....))))........ ( -32.90)
>DroSec_CAF1 28511 110 + 1
GGAGCUGGCAUAGUUAUGUGUCCACAUGGCUGUCGAAUCGAUAUUCUUCACAUAUGUAUA-GUAUAUGUACAUCCUGUUGUGUGGAUUUAC-CCACGGAAGUGGAUUAAUUU
.......((((....))))(((((((..(((((((...)))))..........(((((((-.....)))))))...))..)))))))....-((((....))))........ ( -30.80)
>DroSim_CAF1 24300 110 + 1
GGAGCUGGCAGAGUUAUGUGUCCACAUGGCUGUCGAAUCGAUAUUCUUCACAUAUGUAUA-GUAUAUGUACAUCCUGUUGUGUGGAUUUAC-CCACGGAAGUGGAUUAAUUU
.((..((((((...(((((....))))).))))))..)).......((((((((((((((-.....)))))))......))))))).....-((((....))))........ ( -30.60)
>DroEre_CAF1 27918 97 + 1
GGUGCUGGCAAAGUUAUGUGUCCACAUGGCUGUUGAAUCGAUUUUCUCCACAUAAGUA---------------CCAGUUGCGCGGAUUUACACCACGGAAGUGGAUUAAUUU
((((((.....((((((((....))))))))(..(((......)))..).....))))---------------)).................((((....))))........ ( -25.70)
>consensus
GGAGCUGGCAGAGUUAUGUGUCCACAUGGCUGUCGAAUCGAUAUUCUUCACAUAUGUAUA_GUAUAUGUACAUCCUGUUGUGUGGAUUUAC_CCACGGAAGUGGAUUAAUUU
.((..(((((..(((((((....))))))))))))..)).......((((((((((((((......))))))......))))))))......((((....))))........ (-23.21 = -24.53 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:32 2006