Locus 1905

Sequence ID 3R_DroMel_CAF1
Location 5,430,730 – 5,430,821
Length 91
Max. P 0.925634
window3133

overview

Window 3

Location 5,430,730 – 5,430,821
Length 91
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 94.51
Mean single sequence MFE -17.14
Consensus MFE -15.96
Energy contribution -15.72
Covariance contribution -0.24
Combinations/Pair 1.05
Mean z-score -1.38
Structure conservation index 0.93
SVM decision value 1.17
SVM RNA-class probability 0.925634
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5430730 91 + 27905053
AAGUCCUGUCCAAACGCAUUCAAAUGCA-AAAGGUAGAGCAGUCAGGCAGCUAAGGAGCCACUAAAUAAAAUCAUUAAAAAUAAUGAACGCA
..(..(((.((....((((....)))).-...)))))..)......((.(((....)))............((((((....))))))..)). ( -15.10)
>DroSec_CAF1 17396 91 + 1
AAGUCCUGUCCAAAGGCAUUCAAAUGCA-AAAGGUAGAGCAGUCGGGCAGCCGAGGAGCCACUAAAUAAAAUCAUUAAAAAUAAUGAACGCA
..(..(((.((....((((....)))).-...)))))..).(.(((((..(....).)))...........((((((....)))))).))). ( -16.90)
>DroSim_CAF1 12406 91 + 1
AAGUCCUGUCCAAAGGCAUUCAAAUGCA-AAAGGUAGAGCAGUCAGGCAGCCGAGGAGCCACUAAAUAAAAUCAUUAAAAAUAAUGAACGCA
.....(((.((....((((....)))).-...))))).((.....(((..(....).)))...........((((((....))))))..)). ( -16.20)
>DroEre_CAF1 17941 88 + 1
AAGUCCUGUCCAAUGGCAUUCAAAUGCA-AAAGGUAGAGCAGCCAGGCAGC---GGAGCCACUAAAUAAAAUCAUUAAAAAUAAUGAACGCA
..(..(((.((....((((....)))).-...)))))..).((..(((...---...)))...........((((((....))))))..)). ( -18.70)
>DroYak_CAF1 18303 89 + 1
AAGUCCUGUCCAAUGGCAUUCAAAUGCAGAAAGGUAGAGCAGCCAGGCGGC---GGAGCCACUAAAUAAAAUCAUUAAAAAUAAUGAACGCA
..(..(((.((....((((....)))).....)))))..).((..(((...---...)))...........((((((....))))))..)). ( -18.80)
>consensus
AAGUCCUGUCCAAAGGCAUUCAAAUGCA_AAAGGUAGAGCAGUCAGGCAGC__AGGAGCCACUAAAUAAAAUCAUUAAAAAUAAUGAACGCA
..(..(((.((....((((....)))).....)))))..).((..(((.........)))...........((((((....))))))..)). (-15.96 = -15.72 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:29 2006