Locus 6678

Sequence ID 3L_DroMel_CAF1
Location 17,754,172 – 17,754,291
Length 119
Max. P 0.720625
window10866

overview

Window 6

Location 17,754,172 – 17,754,291
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.94
Mean single sequence MFE -33.48
Consensus MFE -27.20
Energy contribution -27.40
Covariance contribution 0.20
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.81
SVM decision value 0.40
SVM RNA-class probability 0.720625
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17754172 119 + 23771897
GGAUGCGGAGCUCAACCCUUUGGACGCAGCUGCUCCCUCGGAGCAUCCAAAAUGUAAACAGC-AGUGCCAGGAACACAAAGUGCCCUAGGUGCAAACACGUACUGCAAUUCAAAUAAAGA
(((((((.(((((..((....))..).)))).)(((...)))))))))............((-(((((.(((.((.....))..)))..(((....)))))))))).............. ( -34.10)
>DroSec_CAF1 116 117 + 1
GGAUGCGGAGCUCAACCCUUUGGACACAGCUGCUCCG--AGGGCAUCCAAAAUGUAAACAGC-AGUGCCAGGAACACAAAGUGCCCUAGGUGCAAACACGUACUGCAAUUCAAAUAAAGA
((((((((.......))(((((((((....)).))))--)))))))))............((-(((((.(((.((.....))..)))..(((....)))))))))).............. ( -34.30)
>DroSim_CAF1 2268 117 + 1
GGAUGCGGAGCUCAACCCUUUGGACGCAGCUGCUCCG--AGGGCAUCCAAAAUGUAAACAGC-AGUGCCAGGAACACAAAGUGCCCUAGGUGCAAACACGUACUGCAAUUCAAAUAAAGA
((((((((.......))(((((((.((....))))))--)))))))))............((-(((((.(((.((.....))..)))..(((....)))))))))).............. ( -37.10)
>DroEre_CAF1 2880 118 + 1
GGAUGCGGGGCUCAACCCUUUGGACGCAGCUGCUCCG--ACGGCAUCCAAAAUGUAAACAGCCAGUGCCAGGAACACAAAGUGCCCUAGGUGCAAACACGUACUGCAAUUCAAAUAAAGA
(((((((((......))).(((((.((....))))))--)..))))))............((.(((((.(((.((.....))..)))..(((....)))))))))).............. ( -34.70)
>DroYak_CAF1 19405 117 + 1
GAAUGCGGAGCUCAACCCUUUGGACGCAGCUGCUCCG--ACAGCAUCCAAAAUGUAAACAGC-AGUGGCAGGAACACAAAGUGCCCUAGGUGCAAACACGUACUGCAAUUCAAAUAAAGA
((((((((.(((..((..((((((....((((.....--.)))).))))))..))....)))-.(((.......)))...(..((...))..).........)))).))))......... ( -27.20)
>consensus
GGAUGCGGAGCUCAACCCUUUGGACGCAGCUGCUCCG__AGGGCAUCCAAAAUGUAAACAGC_AGUGCCAGGAACACAAAGUGCCCUAGGUGCAAACACGUACUGCAAUUCAAAUAAAGA
((((((((.((...((..((((((......(((((.....)))))))))))..)).........((((((((.((.....))..))).)))))......)).)))).))))......... (-27.20 = -27.40 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:20 2006