Locus 5587

Sequence ID 2R_DroMel_CAF1
Location 17,857,078 – 17,857,168
Length 90
Max. P 0.591536
window8944

overview

Window 4

Location 17,857,078 – 17,857,168
Length 90
Sequences 4
Columns 112
Reading direction forward
Mean pairwise identity 85.05
Mean single sequence MFE -23.19
Consensus MFE -17.55
Energy contribution -17.18
Covariance contribution -0.37
Combinations/Pair 1.04
Mean z-score -1.52
Structure conservation index 0.76
SVM decision value 0.12
SVM RNA-class probability 0.591536
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17857078 90 + 20766785
CCAACUAAGUGCUUUC-CCUUUGUCCAAAAGCAUCUUGCUCCCAGUUAGCAGCUC---------------------CCAGCAUCAAACUUGAAGUUCAGGCUGAGCACUUGA
.....(((((((((..-(((........(((.....((((...(((.....))).---------------------..)))).....))).......)))..))))))))). ( -20.46)
>DroSim_CAF1 24828 111 + 1
CCAACUAAGUGCUUUC-CCUUUGUCCAGAAGCAUCUUGCUCCCAGUUAGCAGCUCCCAGCUCCCAGCUCCCAGCUUCCAGCAUCAAACUUGAAGUUCAGGCUGAGCACUUGA
.....(((((((((..-(((.......(((((...(((((.......))))).....(((.....)))....))))).(((.(((....))).))).)))..))))))))). ( -27.30)
>DroEre_CAF1 26821 90 + 1
CCAACUAAGUGCUUUC-CCUUUGUCCAGAAGCAUCUUGCGCCCCGUUAGCAGCACCC---------------------AGCAUCAAACUUGAAGUUCAGGCUGAGCACUUGA
.....(((((((((..-(((.......((.((....(((((.......)).)))...---------------------.)).)).(((.....))).)))..))))))))). ( -20.50)
>DroYak_CAF1 24434 98 + 1
CCAACUAAGUGCUUUCCCCUUUGUCCAGAAGCAUCUUGCUUCCAGUUAGCAGCACCCAGCUC--------------CCAGCAUCAAACUUGAAGUUCAGGCUGAGCACUUGA
.....(((((((((..((((((.....(((((.....)))))..(((.(.(((.....))).--------------).))).........))))....))..))))))))). ( -24.50)
>consensus
CCAACUAAGUGCUUUC_CCUUUGUCCAGAAGCAUCUUGCUCCCAGUUAGCAGCACCC___________________CCAGCAUCAAACUUGAAGUUCAGGCUGAGCACUUGA
.....(((((((((...(((..........((..((.(((...))).))..)).........................(((.(((....))).))).)))..))))))))). (-17.55 = -17.18 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:12 2006