Locus 4204

Sequence ID 3L_DroMel_CAF1
Location 12,283,586 – 12,283,693
Length 107
Max. P 0.958242
window6516

overview

Window 6

Location 12,283,586 – 12,283,693
Length 107
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.64
Mean single sequence MFE -19.05
Consensus MFE -12.55
Energy contribution -13.13
Covariance contribution 0.59
Combinations/Pair 1.17
Mean z-score -2.35
Structure conservation index 0.66
SVM decision value 1.49
SVM RNA-class probability 0.958242
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12283586 107 - 23771897
CCAUUCCCAUCCCCUUUUCCCAUUCCAUU------CUUGGCCAUAUCCUUAUACCCAUUCUCAUC--CAUAUCCUUAGUGGAUGUGACUAGACUAAGAUGGAUUAAGCUCCAAGU
.......................(((((.------(((((.((((....)))......((.((((--(((.......))))))).))...).))))))))))............. ( -19.10)
>DroPse_CAF1 21732 90 - 1
UCAUCCUCAUCCACAU------CCACAU------------CCACAUCCA------CGUCGUCAUCAUCAUGGUCGUACUGGAUGUGACUAGACUAAGAUGGAUUAAGC-CCAAGU
..............((------(((...------------.((((((((------.((((((((....)))).)).)))))))))).((......)).))))).....-...... ( -19.40)
>DroSec_CAF1 18635 113 - 1
CCAUUCCCAAUCCCACUUCCCAUCCCAUCCUUAUCCUUGGCCAUAUCCUUAUACCCAUUCUCAUC--CAUAUCCUUAGUGGAUGUGACUAGACUAAGAUGGAUUAAGCUCCAAGU
........................(((((.(((((..(((..(((....)))..))).((.((((--(((.......))))))).))...)).)))))))).............. ( -18.50)
>DroSim_CAF1 18929 113 - 1
CCAUUCCAAAUCCCACUUCCCAUCCCAUCCUUAUCCUUGGCCAUAUCCUUAUACCCAUUCUCAUC--CAUAUCCUUAGUGGAUGUGACUAGACUAAGAUGGAUUAAGCUCCAAGU
........................(((((.(((((..(((..(((....)))..))).((.((((--(((.......))))))).))...)).)))))))).............. ( -18.50)
>DroEre_CAF1 18678 107 - 1
CCAUCCCCAUCCCCAU------UCCCAUCCUUAUCCUUGGCCAUAUCCUUAUACCCAUGCUCAUC--CGUAUCCUUAGUGGAUGUGACUAGACUAAGAUGGAUUAAGCCCCAAGU
................------..(((((.(((...((((.(((((((...((...((((.....--.))))...))..))))))).))))..)))))))).............. ( -19.00)
>DroYak_CAF1 19320 101 - 1
CCAUC------CCCAU------UCUCAUCCUUAUCCUUGGCCAUAUCCUCGCACCCAUUCUCAUC--CAUAUCCUUAGUGGAUGUGACUAGACUAAGAUGGAUUAAGCCCCAAGU
.....------.....------.............(((((....((((((........((.((((--(((.......))))))).)).........)).))))......))))). ( -19.83)
>consensus
CCAUCCCCAUCCCCAU______UCCCAUCCUUAUCCUUGGCCAUAUCCUUAUACCCAUUCUCAUC__CAUAUCCUUAGUGGAUGUGACUAGACUAAGAUGGAUUAAGCUCCAAGU
...................................(((((....((((...................(((((((.....))))))).((......))..))))......))))). (-12.55 = -13.13 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:44 2006