Locus 3946

Sequence ID 2L_DroMel_CAF1
Location 11,503,619 – 11,503,737
Length 118
Max. P 0.826558
window6226

overview

Window 6

Location 11,503,619 – 11,503,737
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.15
Mean single sequence MFE -39.06
Consensus MFE -22.40
Energy contribution -26.22
Covariance contribution 3.82
Combinations/Pair 1.09
Mean z-score -2.32
Structure conservation index 0.57
SVM decision value 0.70
SVM RNA-class probability 0.826558
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11503619 118 - 22407834
ACGCAGUGCCGAUGCUGCGGUGCAGUGC-AAAUGGG-CAUUAAGUCAACUCGCAUCGAGGAAGACAUUUGUCAAUCUUAGACGAUGCCGAAGCUGUCGUCAGAGAAACGUAUUGCAACAC
.((((((......)))))).((((((((-.....((-((....(((..((((...))))...)))...))))..((((.((((((((....)).)))))).))))...)))))))).... ( -42.80)
>DroVir_CAF1 106807 93 - 1
---------------GACACGAGAGCGCUAAACGGGCCAUUAAGUCAACUGGCAUUGAGGAAGACAUUUGUCACUCCAUGUCG----CGACGAUGCUGUUAG--------AUCGCAGCGC
---------------(((..((..((.(.....).))..))..)))....(((((.(((...(((....))).))).)))))(----(..((((........--------))))..)).. ( -24.10)
>DroSec_CAF1 69344 118 - 1
ACGCAGUGCCGAUGCUGCGGUGCAGUGC-AAAUGGG-CAUUAAGUCAACUCGCAUCGAGGAAGACAUUUGUCAAUCUUAGACGAUGCCGAAGCUGUCGUCAGAGAAACGUAUUGCAACAC
.((((((......)))))).((((((((-.....((-((....(((..((((...))))...)))...))))..((((.((((((((....)).)))))).))))...)))))))).... ( -42.80)
>DroSim_CAF1 73732 118 - 1
ACGCAGUGCCGAUGCUGCGGUGCAGUGC-AAAUGGG-CAUUAAGUCAACUCGCAUCGAGGAAGACAUUUGUCAAUCUUAGACGAUGCCGAAGCUGUCGUCAGAGAAACGUAUUGCAACAC
.((((((......)))))).((((((((-.....((-((....(((..((((...))))...)))...))))..((((.((((((((....)).)))))).))))...)))))))).... ( -42.80)
>DroYak_CAF1 73296 118 - 1
ACGCAGUGCCGAUGCUGCGGUGCAGUGC-AAAUGGG-CAUUAAGUCAACUCGCAUCGAGGAAGACAUUUGUCAAUCUUAGACGAUGCCGAAGCUGUCGUCAGAGAAACGUAUUGCAACAC
.((((((......)))))).((((((((-.....((-((....(((..((((...))))...)))...))))..((((.((((((((....)).)))))).))))...)))))))).... ( -42.80)
>consensus
ACGCAGUGCCGAUGCUGCGGUGCAGUGC_AAAUGGG_CAUUAAGUCAACUCGCAUCGAGGAAGACAUUUGUCAAUCUUAGACGAUGCCGAAGCUGUCGUCAGAGAAACGUAUUGCAACAC
.((((((......)))))).((((((((...............(((..((((...))))...))).........((((.((((((((....)).)))))).))))...)))))))).... (-22.40 = -26.22 +   3.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:30 2006