Locus 4005

Sequence ID X_DroMel_CAF1
Location 10,598,139 – 10,598,239
Length 100
Max. P 0.571047
window6585

overview

Window 5

Location 10,598,139 – 10,598,239
Length 100
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 73.37
Mean single sequence MFE -18.83
Consensus MFE -0.30
Energy contribution -0.42
Covariance contribution 0.12
Combinations/Pair 1.17
Mean z-score -1.30
Structure conservation index 0.02
SVM decision value 0.07
SVM RNA-class probability 0.571047
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10598139 100 + 22224390
UUUACUAAAAAAAAAAAGCACAGUGGUGUAAAAAUGAAACCA-AGCUGUGCGAGUGACUUUAAAUGU----AGUAUUCAUG-----CGGCAUUUAAUAUCUGAGUCAUUU
.................((((((((((...........))).-.)))))))((((((((((((((((----.(((....))-----).)))))))......))))))))) ( -27.00)
>DroSec_CAF1 6839 93 + 1
UUUACUAAAAAAG-------CAGUGU-GUUAAAAUGAAACCAAAGCUGUCCAAGUGACUUUAAAUGU----AGUAUUCAUG-----CGGCAUUUAAUAUCUGAGUCAUUU
...........((-------(..((.-(((.......)))))..)))....((((((((((((((((----.(((....))-----).)))))))......))))))))) ( -17.80)
>DroSim_CAF1 7496 93 + 1
UUUACUAAAAAAG-------CAAUGGGGUUAAAAUGAAACCA-AGCUGUCCAAGUGACUUAAAAUGU----AGUAUUCAUG-----CGGCAUUUAAUAUCUGAGUCAUUU
...........((-------(..(((..((.....))..)))-.)))....((((((((((((((((----.(((....))-----).))))))......)))))))))) ( -18.50)
>DroEre_CAF1 7017 88 + 1
UUUACU-------AAAAACACAGUGGAAUAAAAAUGAAACCA-AG-AGAUGC----AGCUCAAGUGU----AGUAUCUAUG-----CGGCAUUUAAUGUCUGAAGCAUUU
((((((-------........))))))....(((((......-..-((((((----.((......))----.))))))...-----.(((((...))))).....))))) ( -13.80)
>DroYak_CAF1 7180 105 + 1
UUUACCGAAAAAAAAAAACACAGUGCUGUAAAAAUGAAAGCA-AGUUGACGG----AGCUGAAGUGUACAUAGUAUUCAUGCAUUCCGGCUUUUAAUAUCUGAAGCAUUU
.....................((((((.......(((((((.-......(((----(((((((............)))).))..)))))))))))........)))))). ( -17.07)
>consensus
UUUACUAAAAAAAAAAA_CACAGUGGUGUAAAAAUGAAACCA_AGCUGUCCAAGUGACUUUAAAUGU____AGUAUUCAUG_____CGGCAUUUAAUAUCUGAGUCAUUU
....................((((((.............)))...................((((((.....................)))))).....)))........ ( -0.30 =  -0.42 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:04 2006