Locus 5439

Sequence ID 2L_DroMel_CAF1
Location 15,489,602 – 15,489,710
Length 108
Max. P 0.655270
window8636

overview

Window 6

Location 15,489,602 – 15,489,710
Length 108
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 88.83
Mean single sequence MFE -34.06
Consensus MFE -23.88
Energy contribution -24.16
Covariance contribution 0.28
Combinations/Pair 1.08
Mean z-score -2.06
Structure conservation index 0.70
SVM decision value 0.25
SVM RNA-class probability 0.655270
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15489602 108 + 22407834
AAGCGAAACCGAACUGAAUCGCAGUUCAAUCCGGCUAACAAAAGUCGGUCCAUUCUAACGCACUAC--------UCGCCACUCGUAAGGUUGUGGGCAGCAGCAGUUGCAAAUGUA
..(((.....((((((.....))))))...((((((......))))))..........))).((((--------..(((........))).))))(((((....)))))....... ( -32.20)
>DroSec_CAF1 228250 108 + 1
AAGCGAAAACGAACUGAAUCGCAGUUCAAUCCGGCUAACAAAAGUCGGUCCAUUCUAACGCACUAC--------UCGCCACUCGUAAGGUUGUGGGCAGCAGCAGUUGCAAAAGUA
..(((.....((((((.....))))))...((((((......))))))..........)))(((..--------...((((((....))..))))(((((....)))))...))). ( -32.50)
>DroSim_CAF1 234669 108 + 1
AAGCGAAAACGAACUGAAUCGCAGUUCAAUCCGGCUAACAAAAGUCGGUCCAUUCUAACGCACUAC--------UCGCCACUCGUAAGGUUGUGGGCAGCAGCAUUUGCAAAAGUA
..(((((...((((((.....))))))...((((((......))))))...........((.((.(--------((((.((.(....))).))))).))..)).)))))....... ( -30.50)
>DroEre_CAF1 238155 106 + 1
GAGCGAAACCGAGCUGAAUCGCAGUUCAAUGCGGCUAACACAAGUGGGUCCAUUCUAACGCACUAG--------UUGCCA--CGUUAGGUUGUGGGCAGCAGCAGUUGCCAAAGCA
..((..((((((((((.....))))))((((.(((.(((...((((.((........)).)))).)--------))))).--)))).))))...((((((....))))))...)). ( -37.90)
>DroYak_CAF1 237755 114 + 1
AUGCGAAACCGAACUGAAUCGCAGUUCAAUGCGGCCAACAAACGUCGGUCCAUUCUAACGCACUAGUUGGCUAGUUGCCA--AGUAAGGUUGUGGGCAGCAGCAGUUGCAAAAGUG
.(((((....((((((.....))))))..((((((((((...(((..(......)..))).....))))))).((((((.--.(......)...)))))).))).)))))...... ( -37.20)
>consensus
AAGCGAAACCGAACUGAAUCGCAGUUCAAUCCGGCUAACAAAAGUCGGUCCAUUCUAACGCACUAC________UCGCCACUCGUAAGGUUGUGGGCAGCAGCAGUUGCAAAAGUA
..(((.....((((((.....)))))).....((((.((....)).))))........)))................((((..........))))(((((....)))))....... (-23.88 = -24.16 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:13 2006