Locus 3990

Sequence ID X_DroMel_CAF1
Location 10,569,133 – 10,569,230
Length 97
Max. P 0.994802
window6563

overview

Window 3

Location 10,569,133 – 10,569,230
Length 97
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 76.57
Mean single sequence MFE -14.08
Consensus MFE -6.18
Energy contribution -5.74
Covariance contribution -0.44
Combinations/Pair 1.31
Mean z-score -2.68
Structure conservation index 0.44
SVM decision value 2.51
SVM RNA-class probability 0.994802
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10569133 97 + 22224390
---------------ACAAAAGCCAUUGCCAAAAACAAAAAUAAAAUUAAGAAGACAGCUGAAAAAAAAAAAGUUGAAAUGCAAAAGAGACGCA-AAUUGUUAAUUGGCUAUU
---------------............(((((.(((((.................(((((...........)))))...(((.........)))-..)))))..))))).... ( -14.00)
>DroVir_CAF1 16361 101 + 1
GGGAGGGGGGCAAUCACACAAAAUAUUAGC-------AAAAUAAAAUUUCAAAUAAAAGAAAAAA---CCUAUUUUUA--GCACAACGGACACAAAAUUGUUGAUUCGCUAUU
........((((((((.((((.......((-------((((((...((((........))))...---..))))))..--)).....(....)....))))))))).)))... ( -10.50)
>DroSec_CAF1 9249 93 + 1
---------------ACAAAAGCCAUUGCCAAAAACAAAAAUAAAAUUAACAAAACAGCAGAAAA----AAAGUUGAAAUGCAAAAGAGACGCA-AAUUGUUAAUUGGCUAUU
---------------.....((((.(((.......)))......(((((((((..((((......----...))))...(((.........)))-..)))))))))))))... ( -15.10)
>DroSim_CAF1 8624 94 + 1
---------------ACAAAAGCCAUUGCCAAAAACAAAAAUAAAAUUAACAAAACAGCAGAAAA---AAAAGUUGAAAUGCAAAAGAGACGCA-AAUUGUUAAUUGGCUAUU
---------------.....((((.(((.......)))......(((((((((..((((......---....))))...(((.........)))-..)))))))))))))... ( -15.00)
>DroEre_CAF1 9245 93 + 1
---------------ACAAAAGCCAUUGCCAAAAACAAAAAUAAAAUUAACAAAACAACGGAAA----AAAAGUUGAAAUGCAAAAGAGACGCA-AAUUGUUAAUUGGCUAUU
---------------.....((((.(((.......)))......(((((((((..((((.....----....))))...(((.........)))-..)))))))))))))... ( -15.80)
>consensus
_______________ACAAAAGCCAUUGCCAAAAACAAAAAUAAAAUUAACAAAACAGCAGAAAA___AAAAGUUGAAAUGCAAAAGAGACGCA_AAUUGUUAAUUGGCUAUU
....................(((((..............................((((.............))))............((((......))))...)))))... ( -6.18 =  -5.74 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:43 2006