Locus 4516

Sequence ID 2L_DroMel_CAF1
Location 12,954,164 – 12,954,274
Length 110
Max. P 0.509673
window7101

overview

Window 1

Location 12,954,164 – 12,954,274
Length 110
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 84.82
Mean single sequence MFE -30.42
Consensus MFE -19.92
Energy contribution -20.80
Covariance contribution 0.88
Combinations/Pair 1.11
Mean z-score -1.74
Structure conservation index 0.65
SVM decision value -0.05
SVM RNA-class probability 0.509673
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12954164 110 + 22407834
AUA-UAAAAUACAAAUCGAAUGCGUAGUGUCAUAGCAGCUUAAGCCGGA------GCAAAGGAGGAGCAGCAUCCGCGCUGCGCUCCAGAGGCACAAAAGACAAAAGUCAAACUUGG
...-.......(((............(((((......((((......))------))...((((..(((((......))))).))))...)))))....(((....)))....))). ( -30.40)
>DroSec_CAF1 126101 110 + 1
AUA-UAAAAUACAAAUCGAAUGCGUAGUGUCAUAGCAGCUUAAGCUGGA------GCAAAGGAGGAGCCGCAUCCGCACUGCGCUCCAGAGGCACAAAAGACAAAAGUCAAACUUGG
...-.......(((............(((((.....(((....)))(((------((..((..(((......)))...))..)))))...)))))....(((....)))....))). ( -27.60)
>DroSim_CAF1 131703 110 + 1
AUU-UUACAUACAAAUCAAAUGCGUAGUGUCAUAGCAGCUUAAGCUGGA------GCAAAGGAGGAGGAGCAUCCGCGUUGCGCUCCAGAGGCACAAAAGACAAAAGUCAAACUUGG
...-.......(((............(((((.....(((....)))(((------((.((.(.(((......))).).))..)))))...)))))....(((....)))....))). ( -27.50)
>DroEre_CAF1 133628 116 + 1
GUACUGAAAGUAAAAUCGAAGGAGUAGUGUCAUAGCAGCUGAAGCAGCAGC-GCAGCAGAGGAGGAGCAGCAUCCGCGCCGCGCUCCAGAGACACAAAAGACAAAAGUCAAACUUGG
.......((((....((....))...(((((...((.((((......))))-))......((((..((.((......)).)).))))...)))))....(((....)))..)))).. ( -32.00)
>DroYak_CAF1 128710 117 + 1
AUACUUAAAUGAAAAUCCAAGGAGUAGUGUCAUAGCAGCUGAAACAGCGGCAGCCGAGGAGGAGGAGCAGUAUUCGCCCUGCGCUCCAGAGGCACAAAAGACAAAAGUCAAACUUGG
................(((((((.(..((((...((.((((...)))).)).(((..((((((((.((.......))))).).))))...)))......))))..).))...))))) ( -34.60)
>consensus
AUA_UAAAAUACAAAUCGAAUGCGUAGUGUCAUAGCAGCUUAAGCAGGA______GCAAAGGAGGAGCAGCAUCCGCGCUGCGCUCCAGAGGCACAAAAGACAAAAGUCAAACUUGG
..........................(((((......((....))...............((((..(((((......))))).))))...)))))....(((....)))........ (-19.92 = -20.80 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:40 2006