Locus 840

Sequence ID 2R_DroMel_CAF1
Location 3,940,047 – 3,940,152
Length 105
Max. P 0.621938
window1461

overview

Window 1

Location 3,940,047 – 3,940,152
Length 105
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.73
Mean single sequence MFE -32.79
Consensus MFE -19.04
Energy contribution -20.88
Covariance contribution 1.84
Combinations/Pair 1.30
Mean z-score -1.67
Structure conservation index 0.58
SVM decision value 0.18
SVM RNA-class probability 0.621938
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3940047 105 - 20766785
UUCGGACUCCUCGUCCGCUCGACCGUCCUCAUCUCACUUGCUAAACUUGAGGCCCACUGCAAAAGGAUAAGGAAAGCGCACCCAGCGAGAGAGGAAAGACAAUUA
..(((((.....))))).....(..(((((.((((....(((...((((...((..........)).))))...)))((.....)))))))))))..)....... ( -26.70)
>DroSec_CAF1 653 105 - 1
UCCUGACUCGUCGUCCGCUCGACCGGCCUCAUCUCACUUGCUGAACUUGAGGCCCACUGCAAAAGGACGAGGAAAACGCACCCAGCGGGUGAGGAAAUACAAUUA
((((.((((.((((((((......(((((((..(((.....)))...)))))))....))....)))))).))...(((.....))).)).)))).......... ( -37.00)
>DroSim_CAF1 1746 105 - 1
UCCGGACUCCUCGUCCGCUCGACCGGCCUCAUCUCACUUGCUGAACUUGAGGCCCACUGCAAAAGGACGAGGAAAGCGCACCCAGCGGGUGAGGAAAGACAAUUA
(((....(((((((((((......(((((((..(((.....)))...)))))))....))....))))))))).....(((((...))))).))).......... ( -40.40)
>DroEre_CAF1 592 105 - 1
UCCUGACUCCUCGUCCGCUCGACCGGCCUCCUCUCACUUGCUGAACUUGUGGUUACCUGGAACAGGAUGAGGAAAGGAAAACCAGCGGGUGAGGAAAGACAAUUA
..((...(((((..(((((.......(((((((((((..(.....)..))))...((((...))))..)))))..))......)))))..))))).))....... ( -33.52)
>DroYak_CAF1 1632 104 - 1
UCCUGACUCCUCGUCCGCCCGACCGGUCUCAUCUCACUUGCUGAACUUGAGGCCAACUGCAAC-GGAUUAGGAUAGAGGACCCAGCGGGUGAGGAAAGACAAUUA
..((...(((((..((((....(((((((((..(((.....)))...)))))))..(((...(-......)..))).)).....))))..))))).))....... ( -31.50)
>DroPer_CAF1 554 93 - 1
UCCACAC-CAACACCCCCUCGGCUGGCCUGCACUCACUUGCUGAACUUCAGACCAACUGCAAGGAAAGGGGGUAA----A-------AGUGUGACAAAAUAAUUA
..(((((-....(((((((((((.((..........)).))))).((((((.....))).)))....))))))..----.-------.)))))............ ( -27.60)
>consensus
UCCUGACUCCUCGUCCGCUCGACCGGCCUCAUCUCACUUGCUGAACUUGAGGCCAACUGCAAAAGGAUGAGGAAAGCGCACCCAGCGGGUGAGGAAAGACAAUUA
.......(((((((((((......(((((((..(((.....)))...)))))))................((.........)).))))))))))).......... (-19.04 = -20.88 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:41 2006