Locus 5948

Sequence ID 2R_DroMel_CAF1
Location 18,758,307 – 18,758,405
Length 98
Max. P 0.905118
window9542

overview

Window 2

Location 18,758,307 – 18,758,405
Length 98
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 83.33
Mean single sequence MFE -38.90
Consensus MFE -24.27
Energy contribution -24.65
Covariance contribution 0.38
Combinations/Pair 1.11
Mean z-score -2.49
Structure conservation index 0.62
SVM decision value 1.04
SVM RNA-class probability 0.905118
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18758307 98 - 20766785
GGCGGAGCCCCAAUGAUUCUGAUGAGUGGUUUGGGCUUCGGCUU------GGACUUUGGGUUUUGGUAUGGGGCCUGGUCUGGUCAUGCAAGGCGCAUUUUCGC
(.((((((((.(((.((((....)))).))).)))))))).)..------(((((..(((((((.....))))))))))))((..((((.....))))..)).. ( -36.90)
>DroSec_CAF1 121080 91 - 1
GGCGGAGCCCCAAUGAUUCUGAUGAGUGGUUUGGGCCUCUGCUU-------------GGGUAUUGGGAUGGGGCUUGGCGUGGUCAUGCAAGGCGCAUUUUCGC
.((.((((((((....(((..(((.....((..(((....))).-------------.)))))..))))))))))).))((((..((((.....))))..)))) ( -34.30)
>DroSim_CAF1 121783 98 - 1
GGCGGAGCCCCAAUGAUUCUGAUGAGUGGUUUGGGCCUUGGCUU------GGGCUUUGGGUAUUGGGAUGGGGCUUGGCCUGGUCAUGCAAGGCGCAUUUUCGC
(((.((((((((....(((..(((...((((..(((....))).------.)))).....)))..))))))))))).))).((..((((.....))))..)).. ( -43.40)
>DroYak_CAF1 123894 104 - 1
GGCGGAGCACCAAUGAUUCUGAUGAGUGGUUUGGGUUUGGGUUUUGGGAUGGGGCUUUAGUUUUGGGCUGGAGCUUCGUCUGGUCAUGCAAGGCGCAGUUUCGC
.(((((((.(((((.((((....)))).).))))...((.(((((((((((((((((((((.....))))))))))))))).......)))))).))))))))) ( -41.01)
>consensus
GGCGGAGCCCCAAUGAUUCUGAUGAGUGGUUUGGGCCUCGGCUU______GGGCUUUGGGUAUUGGGAUGGGGCUUGGCCUGGUCAUGCAAGGCGCAUUUUCGC
(((.((((((((((.((((....)))).))..((((....))))........................)))))))).))).((..((((.....))))..)).. (-24.27 = -24.65 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:46 2006