Locus 4319

Sequence ID 3L_DroMel_CAF1
Location 12,702,338 – 12,702,446
Length 108
Max. P 0.594612
window6681

overview

Window 1

Location 12,702,338 – 12,702,446
Length 108
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 88.63
Mean single sequence MFE -27.06
Consensus MFE -20.14
Energy contribution -21.46
Covariance contribution 1.32
Combinations/Pair 1.06
Mean z-score -1.64
Structure conservation index 0.74
SVM decision value 0.12
SVM RNA-class probability 0.594612
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12702338 108 + 23771897
UACAUACAUAUAUCCCU-------ACAUAUUUGUAGGAUCAAAGGGAUAUGCCAGCAGUUGAUGUUUAUUUGCCAGCAGUCGAGGGCGCAAAUAUUCAUUAAGUUUAAAUGGCGG
.........((((((((-------(((....)))........))))))))((((..(.((((((..(((((((..((........)))))))))..)))))).).....)))).. ( -28.50)
>DroSec_CAF1 65970 111 + 1
U----ACAUAUAUCCCUAUUUUAUACAUAUUUGUAGGAUCAAAGGGAUAUGCCAGCAGUUGAUGUUUAUUUGCCAGCAGUCGAGGGCGCAAAUAUUCAUUAAGUUUAAAUGGCGG
.----....((((((((((((((((......))))))))...))))))))((((..(.((((((..(((((((..((........)))))))))..)))))).).....)))).. ( -32.20)
>DroSim_CAF1 64736 104 + 1
U----ACAUAUAUCCCU-------ACAUAUUUGUAGGAUCAAAGGGAUAUGGCAGCAGUUGAUGUUUAUUUGCCAGCAGUCGAGGGCGCAAAUAUUCAUUAAGUUUAAAUGGCGG
.----...(((((((((-------(((....)))........)))))))))((...(.((((((..(((((((..((........)))))))))..)))))).).......)).. ( -24.20)
>DroEre_CAF1 68066 102 + 1
U----ACA--UAUCCCU-------ACCUAUUUGUAGGAUCAAAGGGAUGUGCCAGCAGUUGAUGCUUAUUUGCCAGCAGUCGAGGGCACAAAUAUUCAUUAAGUUUAAAUGGCGG
.----..(--(((((((-------.((((....)))).....))))))))((((..(.((((((..((((((((..(....)..))))..))))..)))))).).....)))).. ( -29.50)
>DroYak_CAF1 68498 93 + 1
U----ACA--UAUCCCU-------ACACAUUUGUAGGAUCAAAGGAAUGUG---------GAUGUUUAUUUGCCAGCAGUCGAGGGCACAAAUAUUCAUUAAGUUUAAAUGGCGG
.----...--....(((-------(((....)))))).(((...(((((((---------(((((((...((((..(....)..)))).))))))))))...))))...)))... ( -20.90)
>consensus
U____ACAUAUAUCCCU_______ACAUAUUUGUAGGAUCAAAGGGAUAUGCCAGCAGUUGAUGUUUAUUUGCCAGCAGUCGAGGGCGCAAAUAUUCAUUAAGUUUAAAUGGCGG
..........(((((((.......(((....)))........)))))))(((((..(.((((((..((((((((..(....)..))))..))))..)))))).).....))))). (-20.14 = -21.46 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:25 2006