Locus 7639

Sequence ID 3L_DroMel_CAF1
Location 20,553,253 – 20,553,347
Length 94
Max. P 0.854649
window12408 window12409

overview

Window 8

Location 20,553,253 – 20,553,347
Length 94
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 98.40
Mean single sequence MFE -28.07
Consensus MFE -26.65
Energy contribution -27.40
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.15
Structure conservation index 0.95
SVM decision value 0.76
SVM RNA-class probability 0.843393
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20553253 94 + 23771897
CUCCUACUGGGCUGUCGUAUAAGUGUCAUAUAGGGGAGUGUGUAUAUGGUUUGUAUAAUUAAAUCAUACAAACCCCGCCGACAGUCGUAGACAG
...((((..((((((((((((.......))))((((..(((....((((((((......)))))))))))..))))..)))))))))))).... ( -29.50)
>DroSec_CAF1 95139 94 + 1
CUCCUACUGGGCUGUCGUAUAAGUGUCAUAUAGGGGAGUGUGUAUAUGGUUUGUAUAAUUAAAUCAUACAAACCCCGCCGACAGUCGUAGACAG
...((((..((((((((((((.......))))((((..(((....((((((((......)))))))))))..))))..)))))))))))).... ( -29.50)
>DroSim_CAF1 96629 94 + 1
CUCCUACUGGGCUGUCGUAUAAGUGUCAUAUAGGGGAGUGUGUAUAUGGUUUGUAUAAUUAAAUCAUACAAACCCCGCCGACAGUCGUAGACAG
...((((..((((((((((((.......))))((((..(((....((((((((......)))))))))))..))))..)))))))))))).... ( -29.50)
>DroEre_CAF1 97692 91 + 1
CUCCUACUGGGCUGUCGUAUAAGUGUCAUAUAGGGGAGUGUGUAUAUGGUUUGUAUAAUUAAAUCAUACAAACCCCGC---CAGUCGUAGACAG
((.(.((((((((........)))........((((..(((....((((((((......)))))))))))..)))).)---)))).).)).... ( -23.80)
>consensus
CUCCUACUGGGCUGUCGUAUAAGUGUCAUAUAGGGGAGUGUGUAUAUGGUUUGUAUAAUUAAAUCAUACAAACCCCGCCGACAGUCGUAGACAG
...((((..((((((((((((.......))))((((..(((....((((((((......)))))))))))..))))..)))))))))))).... (-26.65 = -27.40 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 20,553,253 – 20,553,347
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 98.40
Mean single sequence MFE -24.95
Consensus MFE -22.92
Energy contribution -23.68
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.39
Structure conservation index 0.92
SVM decision value 0.80
SVM RNA-class probability 0.854649
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20553253 94 - 23771897
CUGUCUACGACUGUCGGCGGGGUUUGUAUGAUUUAAUUAUACAAACCAUAUACACACUCCCCUAUAUGACACUUAUACGACAGCCCAGUAGGAG
...(((((..((((((....((((((((((((...))))))))))))(((((..........)))))..........))))))....))))).. ( -26.00)
>DroSec_CAF1 95139 94 - 1
CUGUCUACGACUGUCGGCGGGGUUUGUAUGAUUUAAUUAUACAAACCAUAUACACACUCCCCUAUAUGACACUUAUACGACAGCCCAGUAGGAG
...(((((..((((((....((((((((((((...))))))))))))(((((..........)))))..........))))))....))))).. ( -26.00)
>DroSim_CAF1 96629 94 - 1
CUGUCUACGACUGUCGGCGGGGUUUGUAUGAUUUAAUUAUACAAACCAUAUACACACUCCCCUAUAUGACACUUAUACGACAGCCCAGUAGGAG
...(((((..((((((....((((((((((((...))))))))))))(((((..........)))))..........))))))....))))).. ( -26.00)
>DroEre_CAF1 97692 91 - 1
CUGUCUACGACUG---GCGGGGUUUGUAUGAUUUAAUUAUACAAACCAUAUACACACUCCCCUAUAUGACACUUAUACGACAGCCCAGUAGGAG
...(((((....(---((..((((((((((((...)))))))))))).............(.((((.......)))).)...)))..))))).. ( -21.80)
>consensus
CUGUCUACGACUGUCGGCGGGGUUUGUAUGAUUUAAUUAUACAAACCAUAUACACACUCCCCUAUAUGACACUUAUACGACAGCCCAGUAGGAG
...(((((..((((((....((((((((((((...))))))))))))(((((..........)))))..........))))))....))))).. (-22.92 = -23.68 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:23 2006