Locus 3404

Sequence ID X_DroMel_CAF1
Location 9,111,879 – 9,111,974
Length 95
Max. P 0.840868
window5568

overview

Window 8

Location 9,111,879 – 9,111,974
Length 95
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 70.78
Mean single sequence MFE -27.14
Consensus MFE -18.52
Energy contribution -18.64
Covariance contribution 0.12
Combinations/Pair 1.12
Mean z-score -1.33
Structure conservation index 0.68
SVM decision value 0.75
SVM RNA-class probability 0.840868
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9111879 95 + 22224390
UCCAAGGAAUUCCAGUUUUGUGCUGGAAAGUAGGGAAUGGACUCCGUUUGAAAUGCAACCC---------------UGGCGCAUAAGUGGGCGCAAGCGCACAUAAUUUG
.(((.((..(((((((.....))))))).(((..((((((...))))))....)))..)).---------------))).......(((.((....)).)))........ ( -29.80)
>DroSec_CAF1 3106 79 + 1
UCCAAGGAAUUCCAGUUUUGCGCUGGAAAG----------------UUUGAAAUGCAACCC---------------UGUCGCAUAAGUGUACGCAAGCGCACAUGAUUUG
..((((...(((((((.....)))))))..----------------))))..((((.((..---------------.)).))))..(((..(....)..)))........ ( -19.30)
>DroSim_CAF1 3191 79 + 1
UCCAAGGAAUUCCAGUUUUGCGCUGGAAUG----------------UUUGAAAUGCAACCC---------------UGGCGCAUAAGUGUGCGCAAGCGCACAUGAUUUA
.....((....)).....((((((((..((----------------(.......)))..))---------------.))))))...((((((....))))))........ ( -27.10)
>DroEre_CAF1 3241 107 + 1
UCCAUGGAAUUCCAGUUUCACGCUGGAAAGUAGGCAACGGACUUCGCUUGAAAUGCAACCU---CUCGAACUCAAAUGUCGCGUAAGUGUGCGCAGGCGCAACCGAAUAU
(((......(((((((.....)))))))....(....))))...((((((....(((..((---..((.((......))..))..))..))).))))))........... ( -26.60)
>DroYak_CAF1 3217 110 + 1
UUCAAGGAAUUCCAGUUUUACGCUGGAAAGUAGGCAACGGACUUCGCUUGCAAUGCAGCCCUGCUUUAAACUCAAAUGGCGCGUAAUUGUGCGCAAGCGCAACCGAAUUU
.....((..(((((((.....)))))))(((.(....)..))).(((((((...(((....)))..............(((((....))))))))))))...))...... ( -32.90)
>consensus
UCCAAGGAAUUCCAGUUUUGCGCUGGAAAGUAGG_AA_GGACU_CGUUUGAAAUGCAACCC_______________UGGCGCAUAAGUGUGCGCAAGCGCACAUGAUUUG
.........(((((((.....)))))))........................((((........................))))..((((((....))))))........ (-18.52 = -18.64 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:30 2006