Locus 3053

Sequence ID X_DroMel_CAF1
Location 8,170,936 – 8,171,052
Length 116
Max. P 0.656168
window4994

overview

Window 4

Location 8,170,936 – 8,171,052
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.12
Mean single sequence MFE -22.40
Consensus MFE -15.39
Energy contribution -15.63
Covariance contribution 0.25
Combinations/Pair 1.09
Mean z-score -1.74
Structure conservation index 0.69
SVM decision value 0.26
SVM RNA-class probability 0.656168
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8170936 116 + 22224390
AUUUAAAUGCUUUAUUGCAUCUUAAAGUGCACAAAUGAAAGUGCAC---UUUUUCUGCAUUACUUUUUGCAAUAAAUUCAAGUCGUUUGU-UUUGACGCCCCACAUCUUGUGUGUAAAAU
...............((((....(((((((((........))))))---)))...)))).....(((((((..........((((.....-..))))....(((.....)))))))))). ( -25.30)
>DroSec_CAF1 74270 117 + 1
AUUUAAAUGGUUUAUUGCAACUUAAAGUGCACAAAUGAAAUUGCAC---UUUUUCUCCAUUACUUUUAGCAAUAAAUUCAAGUCGUUUCUUUUUGACGCCCCACAUCUUGUGUAUAAAAU
.......(((((((((((.....((((((((..........)))))---)))................)))))))).))).((((........))))....(((.....)))........ ( -18.30)
>DroEre_CAF1 64004 113 + 1
AUUUAAAUGGUUUAUUGCCUCUUAAAGUGCAGCAAUGAAAUUGCAC---UGCUCAUACAGUACUUUUUGCAAUAAAUUGAAGUCAUUUCU-UUUGACGC--CACAUCUUGUGUAUAA-AA
........((((((((((.....(((((((((((.((......)).---))))......)))))))..))))))))))...((((.....-..))))..--(((.....))).....-.. ( -23.00)
>DroYak_CAF1 62045 117 + 1
AUUUCAAUGUUUUAUUGCCUCUUAAAGUGCAGAAAUGAAAUUGCACGUCUUCUUGCACAUUAUUUUUUGCAAUAAAUUGAAGUCAUUUCU-UUUGACGC--CACAUCUUGUGUAUAAAAA
..((((((...(((((((....(((.(((((((((((........))).))).))))).)))......)))))))))))))((((.....-..))))..--(((.....)))........ ( -23.00)
>consensus
AUUUAAAUGGUUUAUUGCAUCUUAAAGUGCACAAAUGAAAUUGCAC___UUCUUCUACAUUACUUUUUGCAAUAAAUUCAAGUCAUUUCU_UUUGACGC__CACAUCUUGUGUAUAAAAA
........((((((((((........((((((........))))))......................))))))))))...((((........))))....(((.....)))........ (-15.39 = -15.63 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:50 2006