Locus 3501

Sequence ID 2L_DroMel_CAF1
Location 10,235,167 – 10,235,287
Length 120
Max. P 0.793544
window5528

overview

Window 8

Location 10,235,167 – 10,235,287
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.06
Mean single sequence MFE -28.02
Consensus MFE -24.55
Energy contribution -23.83
Covariance contribution -0.72
Combinations/Pair 1.27
Mean z-score -1.72
Structure conservation index 0.88
SVM decision value 0.59
SVM RNA-class probability 0.793544
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10235167 120 + 22407834
AUUUCCAACAGCCAUGUGAUGCCCAUUACGAAACACAGUUUCGUGUUCAUAACGAAUCUGGUUUUGUCCUGAAAGAAUCGCCUUUUCAAAACUGGCUUGUCGCUGUUCAAGCUCUGCAUU
......((((((...........((..(((((((.(((.(((((.......))))).))))))))))..))...((...(((...........)))...))))))))............. ( -28.20)
>DroSec_CAF1 7142 120 + 1
AUUUCCAAAAGCCAGGUGAUGCCCAUUACGAAACACAGUUUCGUGUUCAUAACGAAUCUGGUUUUGUCCUGAAAGAAUCGUCUUUUCAGAACUGGCUUGUCGCUGUUCAAGCUCUGCAUC
........(((((((............(((((((.(((.(((((.......))))).)))))))))).((((((((....)).))))))..)))))))...(((.....)))........ ( -34.40)
>DroSim_CAF1 7329 120 + 1
AUUUCCAACAGCCAUGUGAUGCCCAUUACGAAACACAGUUUCGUGUUCAUAACGAAUCUGGUUUUGUCCUGAAAGAAUCGUCUUUUCAGUACUGGCUUGUCGCUGUUCAAGCUCUGCAUC
.......(((((((.(((.........(((((((.(((.(((((.......))))).)))))))))).((((((((....)).))))))))))))).))).(((.....)))........ ( -31.00)
>DroEre_CAF1 7254 120 + 1
AUUUCUAACAGCCAUGUAAUGCCCAUUACAAAACACAAUUUUGUGUUCAUAACAAAUCUGGUUUUGUCCUGAAAAAAUCGCCUCUUCAGCACUGGCUUAUCGCUAUUCAAGCUUUGCAUC
.............((((((.((.((..(((((((.((..(((((.......)))))..)))))))))..))........(((...........)))..............)).)))))). ( -22.00)
>DroYak_CAF1 8615 120 + 1
AUUUCCAGCAGCCAUGUGAUGCCCAUCACAAAACACAAUUUUGUGUUCAUAACAAAUCUGGUCUUGUCCUGAAAAAAUCGCCUUUUCAGCACUGGCUUAUCGCUGUUUAAGCUCUGCAUC
.......(((((((((((((....)))))).((((((....))))))...........)))....((.(((((((.......))))))).)).((((((........))))))))))... ( -28.30)
>DroAna_CAF1 7591 120 + 1
AUCUCCAGAAGCCACGUAAUGCCCAUGACAAAACAUAGCUUUGUGUUCAUGACAAAUCUAGUCUUAUCUUGGAAGAAUCGUCUUUUCAAUACGGGCUUAUCGCUGUUUAAGCUUUGCAUU
........(((((.((((.((.(((.((.((.((.(((.(((((.......))))).))))).)).)).)))((((....))))..)).)))))))))...(((.....)))........ ( -24.20)
>consensus
AUUUCCAACAGCCAUGUGAUGCCCAUUACAAAACACAGUUUCGUGUUCAUAACAAAUCUGGUUUUGUCCUGAAAGAAUCGCCUUUUCAGAACUGGCUUAUCGCUGUUCAAGCUCUGCAUC
.................(((((.....(((((((.(((.(((((.......))))).)))))))))).(((((((.......)))))))....((((((........))))))..))))) (-24.55 = -23.83 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:57 2006