Locus 5744

Sequence ID 3L_DroMel_CAF1
Location 15,614,477 – 15,614,595
Length 118
Max. P 0.613025
window9109

overview

Window 9

Location 15,614,477 – 15,614,595
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.92
Mean single sequence MFE -25.42
Consensus MFE -14.66
Energy contribution -15.10
Covariance contribution 0.44
Combinations/Pair 1.07
Mean z-score -1.90
Structure conservation index 0.58
SVM decision value 0.16
SVM RNA-class probability 0.613025
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15614477 118 + 23771897
AGCAAUGUCUUCACAGUUCAUGGGUGAUUGCCAACCUAUAGCAUAAAAAACGUUUAUUAAAGAUACAAAUUCA--UAUAAGUUUUGUGUGCAAAACUUACCCAAGCAAUUUAGCUUGGAG
.....((((((....(((.((((((........)))))))))(((((.....)))))..))))))........--..(((((((((....))))))))).((((((......)))))).. ( -27.70)
>DroSec_CAF1 37551 118 + 1
UGCAAUGUCUUCACAGUUCAUGGGUGACUGCCAACCUAUAGCAUAAAAAAGGUUUAUUAAAGAUAUAAGUAUAAAUAUCAGUAUUUA--GAUAAACUUACCCAAGCAGUUUAGCUUGGAG
(((..(((....)))....((((((........)))))).)))......(((((((((..((((((..(((....)))..)))))).--)))))))))..((((((......)))))).. ( -25.40)
>DroSim_CAF1 37594 117 + 1
AGCAAUGUCUUCACAGUUCAUGGGUGAUUGCCAACCUAUAGCAUAAA-AAGGUUUAUUAAAGAUAUAAGUAUAUAUAUAAGUAUUUA--GAUAAACUUACCCAAGCAAUUUAGCUUGGAG
...............(((.((((((........))))))))).....-.(((((((((..((((((..(((....)))..)))))).--)))))))))..((((((......)))))).. ( -24.60)
>DroEre_CAF1 37939 114 + 1
AGCAAUGUCUUCACAGUUCAUGGGUGAUUCCCAACCUAGAGCAUAAA-AAUAACAUUUAAAGAUACGAAUUCC--AAUAGGU-UUUC--GCAUAUCUUACCCAAGCACAUGAGCUUGGCC
...............((((.(((((........))))))))).....-...........((((((((((..((--....)).-.)))--)..))))))..((((((......)))))).. ( -28.60)
>DroYak_CAF1 40336 115 + 1
AGCAAUAUCUUCACAGUUCAUGGGUGACUCCCAGCCUAGAGCAUAAG-AAUAUUUAUCAAAAAUACAAAUUCC--AACAGGUAUUUU--GCAAAACUUACCCAAGCAGUUGAGCUUGCUG
.(((((((((.....((((.(((((........))))))))).....-..(((((.....)))))........--...))))))..)--))..........(((((......)))))... ( -20.80)
>consensus
AGCAAUGUCUUCACAGUUCAUGGGUGAUUGCCAACCUAUAGCAUAAA_AAGGUUUAUUAAAGAUACAAAUUCA__UAUAAGUAUUUA__GCAAAACUUACCCAAGCAAUUUAGCUUGGAG
...............(((.((((((........)))))))))..........................................................((((((......)))))).. (-14.66 = -15.10 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:33 2006