Locus 3997

Sequence ID 2R_DroMel_CAF1
Location 13,223,836 – 13,223,933
Length 97
Max. P 0.999548
window6452

overview

Window 2

Location 13,223,836 – 13,223,933
Length 97
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 77.34
Mean single sequence MFE -36.48
Consensus MFE -20.07
Energy contribution -21.32
Covariance contribution 1.25
Combinations/Pair 1.12
Mean z-score -3.87
Structure conservation index 0.55
SVM decision value 3.71
SVM RNA-class probability 0.999548
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13223836 97 + 20766785
AGAGUUUUCUCAAAGUAUCUUUUGC--UUUUGGCUC------GGACACAGCCGAGCAAAAAAAAAUAUUGAAGGAGGUAACGUUCUC-AACGUUGCUUUCUUUGGG
.(((....)))((((((.....)))--)))..((((------((......))))))...........(..(((((((((((((....-.)))))))))))))..). ( -34.20)
>DroSec_CAF1 4473 95 + 1
AGAGUUUUCUCAAAGUAUCUAUUGGU-UUUUGGCUC------GGACGCAGCCGAGCAAA---AAUUAUUGAAGGAGGUAACGUUCUC-AACGUUGCUUUCUUUGGG
.(((....)))...........((((-(((((.(((------((......)))))))))---)))))(..(((((((((((((....-.)))))))))))))..). ( -34.80)
>DroSim_CAF1 5418 95 + 1
AGAGUUUUCUCAAAGUAUCUUUUGGU-UUUUGGCUC------GGACGCAGCCGAGCCAA---AAUUAUUGAAGGAGGCAACGUUCUC-AACGUUGCUUUCUUUGGG
........(((((((..(((((..((-(((((((((------((......)))))))))---))..))..)))))((((((((....-.))))))))..))))))) ( -40.40)
>DroAna_CAF1 8388 106 + 1
UGAGACUUGUUGGCUUUUCUCUUGCUUUUUUGGCCCGGAGACGGACACAGCCGAGCUAAAAUGUUGGUUGGAGGAGCAAAGAAACGCGGGCGUUGCUUUCUUUGGG
.(((...((((.((.(((((.(((((((((((..(((....))).))(((((.(((......)))))))))))))))))))))).)).))))...)))........ ( -36.50)
>consensus
AGAGUUUUCUCAAAGUAUCUUUUGCU_UUUUGGCUC______GGACACAGCCGAGCAAA___AAUUAUUGAAGGAGGUAACGUUCUC_AACGUUGCUUUCUUUGGG
.(((....))).................(((((((.............)))))))............(..(((((((((((((......)))))))))))))..). (-20.07 = -21.32 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:17 2006