Locus 3306

Sequence ID 3R_DroMel_CAF1
Location 8,856,014 – 8,856,104
Length 90
Max. P 0.839009
window5334

overview

Window 4

Location 8,856,014 – 8,856,104
Length 90
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 74.89
Mean single sequence MFE -24.33
Consensus MFE -8.34
Energy contribution -8.37
Covariance contribution 0.03
Combinations/Pair 1.50
Mean z-score -2.42
Structure conservation index 0.34
SVM decision value 0.74
SVM RNA-class probability 0.839009
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8856014 90 - 27905053
GGUGAAUUACACAAAUUCUAAGGCAAA----UAUGUGGAGCACAAAUGUGUGUGCGUGUGUGGCGCAGACUUUAAAGUCAGUCGAGAAAACCCG
((((((((.....)))))...(((...----..((((..(((((...((....)).)))))..))))((((....)))).)))......))).. ( -20.20)
>DroSec_CAF1 30104 90 - 1
GGUGAAUUACACAAAAUCUGAGACAUA----UACGUGGAGCACAAAUGUGUGUACGUGUGUGGCGCAGACUUUAAAGUCAGUCGAAAAAAACAG
.(((.....)))(((.((((...((((----((((((..((((....)))).))))))))))...)))).)))..................... ( -24.30)
>DroSim_CAF1 29942 90 - 1
GGUGAAUUACACAAAUUCAGAGUCAUA----UAUGUGGAGCACAAAUGUGUGUACGUGUGUGGCGCAGACUUUAAAGUCAGUCGAGAAAAACCG
((((((((.....))))).((((((((----((((((..((((....)))).))))))))))))...((((....))))..)).......))). ( -28.00)
>DroEre_CAF1 30743 90 - 1
GGUGAUUUACAGAAAUUCUGACACAAA----UAUAUGGAGCACAAAUGUGUGUACGUAAGUGGCGCAGACUGAAAAGUCAGUCGAGAAAAACCG
(((..(((.(((.....))).(((...----..((((..((((....))))...)))).))).....((((((....))))))..)))..))). ( -21.00)
>DroYak_CAF1 31244 90 - 1
GGUGAUUUACAGAAAUUCUGAGGCUAA----UAUAUGAAGCACAAAUGUGUGUACGUAAAUGGCACAGACUGAAAAGUCAGUCGAGAAAACCCG
(((..(((.(((.....)))..((((.----..((((..((((....))))...))))..))))...((((((....)))))).)))..))).. ( -21.90)
>DroMoj_CAF1 32633 84 - 1
CAAGCA-UACAUACAUGCUAACAGACAGGCCUUUGUGG-GUAUGUAUGUGUGUGUA----U-GUGCA---UGUACAGCUAGCUGACGAAAGCAA
...(((-((((((((((((.(((((......))))).)-))))))))))))))...----(-((...---(((.(((....))))))...))). ( -30.60)
>consensus
GGUGAAUUACACAAAUUCUGAGACAAA____UAUGUGGAGCACAAAUGUGUGUACGUGUGUGGCGCAGACUGUAAAGUCAGUCGAGAAAAACCG
...............................((((((..((((....)))).))))))..((((...((((....)))).)))).......... ( -8.34 =  -8.37 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:02 2006