Locus 5412

Sequence ID 2R_DroMel_CAF1
Location 17,463,674 – 17,463,781
Length 107
Max. P 0.796041
window8632

overview

Window 2

Location 17,463,674 – 17,463,781
Length 107
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 75.33
Mean single sequence MFE -36.40
Consensus MFE -21.67
Energy contribution -23.18
Covariance contribution 1.50
Combinations/Pair 1.09
Mean z-score -1.86
Structure conservation index 0.60
SVM decision value 0.60
SVM RNA-class probability 0.796041
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17463674 107 - 20766785
CAACCGCAGCAACAACAAGGA-CA--ACGCCUGCGACAGGAUA----------UGGCAAGUGGGCAACUUUGGAGCGGGCGAGUUUAAAUUGCCAGAGCUAAAAGGGUUGCCAGCAACAA
.....((.(((((........-..--..(((..(..((.....----------))....)..)))..((((..(((.(((((.......)))))...)))..)))))))))..))..... ( -33.20)
>DroPse_CAF1 10074 103 - 1
CAGCCGCAACAUCGACAGGCGGCAGGCGGCAGGCGGCAGGCUGCAGGUGCGGAGGGCUUGGCGGCAACUCUGG-----------------UGCCAGGGCUAAAAGGGUUGCCACCAACAA
.((((.(..((((.....(((((..((.(....).))..))))).))))..)..))))(((.(((((((((..-----------------.((....))....))))))))).))).... ( -47.40)
>DroEre_CAF1 11215 107 - 1
CAACCGCAGCAGCAACAAGGA-CA--ACGCCAGCGACAGGAUG----------UGGCAAGUGGGCAACUUUGGAGCAGGCGAGCUUAAAUUGCCAGGGCUAAAAGGGUUGCCAGCAACAA
.....((..............-..--.(((..((.((.....)----------).))..)))(((((((((..(((.(((((.......)))))...)))...))))))))).))..... ( -33.80)
>DroYak_CAF1 11828 107 - 1
CAACCGCAGCAACAACAAGGA-CA--UCGCCAGCGACAGGAUA----------UGGCAAGUGGGCAACUUUGGAGCAGGCGAGUUUAAAUUGCCAGAGCUAAAAGGGUUGCCAGCAACAA
.....((..............-((--(.((((.(.....)...----------))))..)))(((((((((..(((.(((((.......)))))...)))...))))))))).))..... ( -31.20)
>consensus
CAACCGCAGCAACAACAAGGA_CA__ACGCCAGCGACAGGAUA__________UGGCAAGUGGGCAACUUUGGAGCAGGCGAGUUUAAAUUGCCAGAGCUAAAAGGGUUGCCAGCAACAA
............................(((.......................)))..((.(((((((((..(((.(((((.......)))))...)))...))))))))).))..... (-21.67 = -23.18 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:08 2006