Locus 1312

Sequence ID 2R_DroMel_CAF1
Location 5,085,458 – 5,085,572
Length 114
Max. P 0.556071
window2278

overview

Window 8

Location 5,085,458 – 5,085,572
Length 114
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 78.06
Mean single sequence MFE -18.47
Consensus MFE -12.34
Energy contribution -12.82
Covariance contribution 0.47
Combinations/Pair 1.15
Mean z-score -1.17
Structure conservation index 0.67
SVM decision value 0.04
SVM RNA-class probability 0.556071
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5085458 114 - 20766785
-CAUAAUCUAUCACAGAUGCCUCUUAAUCC---UAUCUAACGAAAUUCUACG-UGCAAUUUCAGCUUCUCCAUCGCGUCUGAUGACUCCGGGAGCCAAUCCCUAUCCGCUGAACCUCAU
-..........(((.(((........))).---..((....))........)-))....((((((.....(((((....))))).....((((.....)))).....))))))...... ( -20.30)
>DroSec_CAF1 14158 114 - 1
-CAUAAUCUAUCACAGAUACUCCUUAAUCC---UAUCUAACAAAAUUCUACG-UGCAAUUUUAGCCUCUCCAUCGCGUCUGAUGACUCCGGGAGCCAAUCCCUAUCCGCUGAACCUCAU
-.............(((((...........---)))))..............-......((((((.....(((((....))))).....((((.....)))).....))))))...... ( -15.40)
>DroSim_CAF1 15113 114 - 1
-CAUAAUCUAUCACAGAUGCUUCUUAAUCC---UAUCUAACGAAAUUCUACG-UGCAAUUUCAGCCUCUCCAUCACGUCUGAUGACUCCGGGAGCCAAUCCCUAUCCGCUGAACCUCAU
-..........(((.(((........))).---..((....))........)-))....((((((.....(((((....))))).....((((.....)))).....))))))...... ( -20.60)
>DroEre_CAF1 15891 107 - 1
-CAUAAUCUAUUCCAGAUGUUAUUUAAUCA---UA--------AAUUCUUCGUUGCAAUUUUAGCCUCUCCAUCGCGUCUGAUGACUCCGGGAGCCAAUCCCUAUCCGCUAAACCUCAU
-..............(((........))).---..--------................((((((.....(((((....))))).....((((.....)))).....))))))...... ( -15.50)
>DroYak_CAF1 14395 106 - 1
-CUUAAUCUAUUACAUAUGUUUAAUAAUCU---UA--------CGUUCUUUG-UGCAAUUUCAGCCUCUCCAUCGCGUCUGAUGACUCCGGGAGCCAAUCCCUAUCCGCUGAACCUCAU
-..........((((.((((..........---.)--------)))....))-))....((((((.....(((((....))))).....((((.....)))).....))))))...... ( -18.00)
>DroMoj_CAF1 17938 115 - 1
AUUUAUUCGAACACGUAUCUUUAUGAAUGGCUACAGACAAC---UUGGUUUC-UACUACUCCAGCAUCUCCAUCGCGUCUCAUGACGGCCGGCGCCAACCCCUAUCCGCCGAUACCCAU
..............(((((.........(((..........---((((....-.......))))...........((((....)))))))((((............))))))))).... ( -21.00)
>consensus
_CAUAAUCUAUCACAGAUGCUUCUUAAUCC___UAUCUAAC__AAUUCUACG_UGCAAUUUCAGCCUCUCCAUCGCGUCUGAUGACUCCGGGAGCCAAUCCCUAUCCGCUGAACCUCAU
...........................................................((((((...........(((....)))...((((.....)))).....))))))...... (-12.34 = -12.82 +   0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:56 2006