Locus 6309

Sequence ID 3L_DroMel_CAF1
Location 16,841,104 – 16,841,215
Length 111
Max. P 0.880359
window10122

overview

Window 2

Location 16,841,104 – 16,841,215
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -22.94
Consensus MFE -18.40
Energy contribution -18.80
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.80
SVM decision value 0.91
SVM RNA-class probability 0.880359
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16841104 111 + 23771897
UCCUUAAAUUCCCAGGGAUCCUAUUGUACUUACAUAUACAUAUGUAUGUUCAUAUGUGAAAACACAUGGACAGUUGUUAAGUGCUUAAAAUAUGCAUGCUUUAAUUGCCAG
(((((........)))))......(((..((((((((((((....))))..))))))))..)))..(((.((((((....((((.........))))....))))))))). ( -23.90)
>DroSec_CAF1 30356 107 + 1
UCCUUAAAUUACCAGGGUUUCUAUUGCACUUACAUACAUACACAU----ACAUAUGUGAAAACACAUGGGCAGUUGUUAAGUGCUUAAAAUAUACAUGCUUUAAUUGCCAG
.((((........))))............................----.(((.(((....))).)))((((((((....(((...........)))....)))))))).. ( -16.80)
>DroSim_CAF1 34332 105 + 1
UCCUUAAAUUACCAGUGUUCCUAUUGUACUUACAUACAUACACAU----ACAUAUGUGGAAACACAUGGGCAGUUGUUAAGUGCUUAAAAUAUGCAUGCUUUAAUUGCC--
..............((((......(((....))).....))))..----...((((((....))))))((((((((....((((.........))))....))))))))-- ( -26.70)
>DroEre_CAF1 30632 91 + 1
UCCUUAAAUUCCCAGGGUUCCAAUGGCACAU--------------------AUAUGUGGGAACACAUGGGCAGUUGUCAAGUGCUUAAAAUAUGCAUGAUUUAAUUGCCAG
.((((........))))..............--------------------.((((((....))))))((((((((....((((.........))))....)))))))).. ( -23.80)
>DroYak_CAF1 30643 91 + 1
UCCUUAAAUUCCCAGAGUUUCAACGGUACAU--------------------GUAUGUGGGAACACAUGGGCAGUUGUUAAGUGCUUAAAAUAUGCAUGAUUUAAUUGCCAG
.((((((((((...)))))).)).)).....--------------------.((((((....))))))((((((((....((((.........))))....)))))))).. ( -23.50)
>consensus
UCCUUAAAUUCCCAGGGUUCCUAUUGUACUUACAUA_A_A_A__U_____CAUAUGUGGAAACACAUGGGCAGUUGUUAAGUGCUUAAAAUAUGCAUGCUUUAAUUGCCAG
....................................................((((((....))))))((((((((....((((.........))))....)))))))).. (-18.40 = -18.80 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:19 2006