Locus 6498

Sequence ID 2R_DroMel_CAF1
Location 20,306,930 – 20,307,031
Length 101
Max. P 0.914261
window10352

overview

Window 2

Location 20,306,930 – 20,307,031
Length 101
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 77.08
Mean single sequence MFE -40.19
Consensus MFE -21.52
Energy contribution -22.75
Covariance contribution 1.23
Combinations/Pair 1.35
Mean z-score -2.18
Structure conservation index 0.54
SVM decision value 1.09
SVM RNA-class probability 0.914261
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20306930 101 + 20766785
GUUCGUGGUUACCGCCCAGGAGGU--UGCGGAAGGU---UUGGAGGAUCUGAAGAUGCUGGAGCAAGACGGCAUUACGGGCCUCAAAGUUGCGGUCACCGAGAACG
((((.((((.(((((....(((((--(.((..((((---(.....)))))...(((((((........))))))).))))))))......))))).)))).)))). ( -38.80)
>DroPse_CAF1 28555 101 + 1
GCACACGGUGACCAAGCAGGAUGCGGAGCGGA--UUCUGUUGGAGCGCCAGGAGAAGCUCGACUCAGACGCUCUCAAU---UGCAAGGCCUCACCCACUGAGAACG
(((...((((.((((.((((((.((...)).)--)))))))))..))))..((((.((((......)).))))))...---)))..(..((((.....))))..). ( -32.60)
>DroSec_CAF1 23742 101 + 1
GUUCAUGGUGACCGCCCAGGAGGU--AGCCGAAGGC---UUGGAGGAUCUGAAGAUGCUGGAGCAAGACGGCAUAACGGGCCUCAAAGUUGCGGUCACCGAGAACG
((((.((((((((((...((....--..))...(((---((.((((.((((...((((((........))))))..)))))))).))))))))))))))).)))). ( -48.00)
>DroSim_CAF1 25488 101 + 1
GUUCAUGGUGACCGCCCAGGAGGU--AGCCGAAGGC---UUGGAGGAUCUGAAGAUGCUGGAGCAAGACGGCAUUACGGGCCUCAAAGUUGCGGUCACCGAGAACG
((((.((((((((((...((....--..))...(((---((.((((.((((..(((((((........))))))).)))))))).))))))))))))))).)))). ( -48.00)
>DroEre_CAF1 24127 101 + 1
GUUCGUGGUGACCGCCGAGGAGGU--AGCGGACGUU---CUGGAGGAUCGGAAGACGCUGGAGAAGGGCGGCAUUACGGGUCUCAAAGUUGCGGCCACCGAGAAUG
((((((((((.(((((.......(--((((....((---(((......)))))..)))))......))))))))))).((((.((....)).)))).....)))). ( -34.12)
>DroYak_CAF1 23898 101 + 1
GUUCAUGGUCACCGCCGAGGAGGU--AGCGGACGAU---CUGGAGGAUCGCAAGAUGCUGGAGAAGGACGGCAUUACGGGCCUCAAGGUACCGGCCACCGAGAACG
((((.((((..(((((...(((((--..(((.((((---(.....))))))..(((((((........))))))).)).)))))..))...)))..)))).)))). ( -39.60)
>consensus
GUUCAUGGUGACCGCCCAGGAGGU__AGCGGAAGGU___UUGGAGGAUCUGAAGAUGCUGGAGCAAGACGGCAUUACGGGCCUCAAAGUUGCGGCCACCGAGAACG
((((.(((((.((((.......((...)).............((((.......(((((((........))))))).....))))......)))).))))).)))). (-21.52 = -22.75 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:20 2006