Locus 3913

Sequence ID X_DroMel_CAF1
Location 10,473,238 – 10,473,354
Length 116
Max. P 0.720240
window6419

overview

Window 9

Location 10,473,238 – 10,473,354
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 94.54
Mean single sequence MFE -30.59
Consensus MFE -27.46
Energy contribution -26.65
Covariance contribution -0.81
Combinations/Pair 1.14
Mean z-score -1.63
Structure conservation index 0.90
SVM decision value 0.40
SVM RNA-class probability 0.720240
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10473238 116 + 22224390
UUCGUGCGUGUUUCUUUUAUGUGUGUGUGUCACUGUAUGUUCCCUAUGUGGGUUGUUGUGCGAGUGUGUGGCUGAGAGAGUACUUAUUAUGUAAAGUGCUCAUCUUAUUGACAGUU
..((..((((.......))))..)).....(((((((((..(((.....)))....))))).))))(((.(.(((((((((((((........)))))))).))))).).)))... ( -32.00)
>DroSec_CAF1 4125 116 + 1
UUCGUGCGUGUUCCUUUUAUGUGUGUGUGUCUCUGUAUGUUGUCUAUGUGGGUUGUUGUGCGAGUGUGUGACUGGGAGAGUACUUAUUAUGUAAAGUGCUCAUCUUAUUGACAGUU
..((..((((.......))))..))..((((((..((((.....))))..))..((..(((....)))..))(((((((((((((........)))))))).)))))..))))... ( -26.80)
>DroSim_CAF1 4257 116 + 1
UUCGUGCGUGUUCCUUUUAUGUGUGUGUGUCUCUGUAUGUUGUCUAUGUGGGUUGUUGUGCGAGUGUGUGACUGGGAGAGUACUUAUUAUGUAAAGUGCUCAUCUUAUUGACAGUU
..((..((((.......))))..))..((((((..((((.....))))..))..((..(((....)))..))(((((((((((((........)))))))).)))))..))))... ( -26.80)
>DroEre_CAF1 5227 116 + 1
UUCGUGCGUGUACCCAUUGUGUGUGUGUGCCUUUGUAUGUUGCCUAUGUGGGUUGUUGUGCGAGUGUGUGACUGAGAGAGUACUUAUUAUGUAAAGUGCUCAUCUUAUUGACAGUU
((((..((...((((((.......(..(((....)))..).......))))))...))..))))..(((.(.(((((((((((((........)))))))).))))).).)))... ( -36.74)
>consensus
UUCGUGCGUGUUCCUUUUAUGUGUGUGUGUCUCUGUAUGUUGCCUAUGUGGGUUGUUGUGCGAGUGUGUGACUGAGAGAGUACUUAUUAUGUAAAGUGCUCAUCUUAUUGACAGUU
((((..((....(((.........(..((......))..).........)))....))..))))..(((.(.(((((((((((((........)))))))).))))).).)))... (-27.46 = -26.65 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:32 2006