Locus 1390

Sequence ID 3R_DroMel_CAF1
Location 4,056,891 – 4,056,988
Length 97
Max. P 0.576450
window2291

overview

Window 1

Location 4,056,891 – 4,056,988
Length 97
Sequences 4
Columns 112
Reading direction reverse
Mean pairwise identity 80.86
Mean single sequence MFE -19.95
Consensus MFE -12.46
Energy contribution -13.65
Covariance contribution 1.19
Combinations/Pair 1.05
Mean z-score -1.76
Structure conservation index 0.62
SVM decision value 0.09
SVM RNA-class probability 0.576450
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4056891 97 - 27905053
AAGAAAAAUAUAUAUGUAUGUAUAUCGGACAGACCUUGU-UGUCCACUCCUCCUAACUCCAUCCACCUCCUUCCUCCUGGCAGAUCCCUG--------------CCUCGUCC
..(((..(((((((....))))))).((((((......)-))))).........................))).....(((((....)))--------------))...... ( -17.40)
>DroSec_CAF1 60774 97 - 1
AAGGAAAAUAUAUACGUAUGUAUAUCGGACAGAGCUUGU-UGUCCACUCCUCCUAACUCCUUCCAUCUCCUGCCUCCUGGCAGAUCCCUG--------------CCUCGUCC
..((((...((((((....)))))).((((((......)-)))))...............)))).....(((((....))))).......--------------........ ( -22.80)
>DroSim_CAF1 60545 98 - 1
AAGGAAAAUAUAUACGUAUGUAUAUCGGGCAGACCUUGUUUGUCCACUCCUCCCAACUCCUUCCAGCUCCUGCCUCCUGGCAGAUCCCUG--------------CCUCGUCC
(((((....((((((....)))))).((((((((...))))))))............))))).(((...(((((....)))))....)))--------------........ ( -25.70)
>DroEre_CAF1 46765 98 - 1
CAGGAAAAUA----------UAUAUCGGGCAGACCUUGU-UGUCCACUCCUCCUAACUCCUUCCAC---CGUCCUCCUGGCAGAUCCCUCGUCCGCGUCCUCGUCCUCGUCC
(((((.....----------......((((((......)-)))))..........((.........---.))..)))))((.(((.....))).))................ ( -13.90)
>consensus
AAGGAAAAUAUAUACGUAUGUAUAUCGGACAGACCUUGU_UGUCCACUCCUCCUAACUCCUUCCACCUCCUGCCUCCUGGCAGAUCCCUG______________CCUCGUCC
..((((.((((((....))))))...(((((.(.....).)))))...............)))).....(((((....)))))............................. (-12.46 = -13.65 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:52 2006