Locus 170

Sequence ID 4_DroMel_CAF1
Location 1,083,586 – 1,083,692
Length 106
Max. P 0.983863
window272 window273

overview

Window 2

Location 1,083,586 – 1,083,692
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 84.47
Mean single sequence MFE -26.04
Consensus MFE -19.21
Energy contribution -19.77
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -3.76
Structure conservation index 0.74
SVM decision value 1.96
SVM RNA-class probability 0.983863
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1083586 106 + 1281640
CUAUGUACCUAUGCUUGCAUUUGUAAGCAUACUUUCAUCUAUAUGAAAAAAGGGCAUAAAAAUGUAUAACAAAUUCCAUUACAGAUGUGUGCAAACAUGGAUUGCA
((((((.(((((((((((....))))))))..((((((....))))))..)))(((((....((((.............))))....)))))..))))))...... ( -28.52)
>DroSec_CAF1 16207 97 + 1
-UAUAAACUUAUGUUUGCAUUUAAAAGCUUACUUUCAUCUAUAUGAAAAAAGGGCAUAAAAGUGUUUAACACAG--------UUAUGUGUGCAAACAUGAAUUGCU
-.......((((((((((((.......(((..((((((....))))))..)))((((((..(((.....)))..--------))))))))))))))))))...... ( -25.80)
>DroSim_CAF1 14684 97 + 1
-UAUAAACUUAUGUUUGCAUUUGAAAGCUUACUUUCAUCUAUAUGAAAAAAGGGCAUAAAAGUGUUUAACACAG--------AUAUGUGUGCAAACAUGAAUUGCU
-.......((((((((((((.((((((....))))))................(((((...(((.....)))..--------.)))))))))))))))))...... ( -23.80)
>consensus
_UAUAAACUUAUGUUUGCAUUUGAAAGCUUACUUUCAUCUAUAUGAAAAAAGGGCAUAAAAGUGUUUAACACAG________AUAUGUGUGCAAACAUGAAUUGCU
........((((((((((((......((((..((((((....))))))...))))......(((.....)))................))))))))))))...... (-19.21 = -19.77 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,083,586 – 1,083,692
Length 106
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 84.47
Mean single sequence MFE -22.63
Consensus MFE -17.13
Energy contribution -16.80
Covariance contribution -0.33
Combinations/Pair 1.08
Mean z-score -3.03
Structure conservation index 0.76
SVM decision value 1.59
SVM RNA-class probability 0.966339
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1083586 106 - 1281640
UGCAAUCCAUGUUUGCACACAUCUGUAAUGGAAUUUGUUAUACAUUUUUAUGCCCUUUUUUCAUAUAGAUGAAAGUAUGCUUACAAAUGCAAGCAUAGGUACAUAG
......(((((((((((..((((((((.(((((...(.((((......)))).)....)))))))))))))...(((....)))...))))))))).))....... ( -24.20)
>DroSec_CAF1 16207 97 - 1
AGCAAUUCAUGUUUGCACACAUAA--------CUGUGUUAAACACUUUUAUGCCCUUUUUUCAUAUAGAUGAAAGUAAGCUUUUAAAUGCAAACAUAAGUUUAUA-
...((((.(((((((((..(((((--------..(((.....)))..)))))..((((((((((....))))))).)))........))))))))).))))....- ( -21.80)
>DroSim_CAF1 14684 97 - 1
AGCAAUUCAUGUUUGCACACAUAU--------CUGUGUUAAACACUUUUAUGCCCUUUUUUCAUAUAGAUGAAAGUAAGCUUUCAAAUGCAAACAUAAGUUUAUA-
...((((.(((((((((..((((.--------..(((.....)))...)))).................((((((....))))))..))))))))).))))....- ( -21.90)
>consensus
AGCAAUUCAUGUUUGCACACAUAU________CUGUGUUAAACACUUUUAUGCCCUUUUUUCAUAUAGAUGAAAGUAAGCUUUCAAAUGCAAACAUAAGUUUAUA_
....(((.(((((((((.................(((.....)))......((....(((((((....)))))))...)).......))))))))).)))...... (-17.13 = -16.80 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:01 2006