Locus 5036

Sequence ID 3R_DroMel_CAF1
Location 13,263,337 – 13,263,430
Length 93
Max. P 0.808260
window8224

overview

Window 4

Location 13,263,337 – 13,263,430
Length 93
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 82.25
Mean single sequence MFE -29.92
Consensus MFE -17.60
Energy contribution -18.22
Covariance contribution 0.61
Combinations/Pair 1.07
Mean z-score -2.84
Structure conservation index 0.59
SVM decision value 0.64
SVM RNA-class probability 0.808260
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13263337 93 + 27905053
AUCGCUGACUUUGGCCUGGCUAUUGAACCUGGCUGACCAG-AGUCAGCUGGGAAAAAUGCAAGCAAAAAAGAGAAACAAAAUUGGUCGCAGCAA
...((((.((((.((...((.(((...((..((((((...-.))))))..))...)))))..))...)))).....((....))....)))).. ( -28.60)
>DroPse_CAF1 29223 87 + 1
AAGGCUGACUUUGGCUUGGAUGUUGAACCUGGCUGCGUUGCGGUCAGCUGGGAAAAAUGCAGCCAACAAUUGGCAACCAA-------GCGGCAA
...(((.......((((((.(((..(...((((((((((.(((....))).....))))))))))....)..))).))))-------))))).. ( -32.81)
>DroSec_CAF1 16017 93 + 1
AUCGCUGACUUUGGCCUGGGUAUUGAACCUGGCUGACCAG-AGUCAGCUGGGAAAAAUGCAAGCAAAAAAGAGAAACAAAAUUGGUCGCAGCAA
...((((.((((.((....(((((...((..((((((...-.))))))..))...)))))..))...)))).....((....))....)))).. ( -29.70)
>DroSim_CAF1 16124 93 + 1
AUCGCUGACUUUGGCCUGGCCAUUGAACCUGGCUGACCAG-AGUCAGCAGGGAAAAAUGCAAGCAAAAAGGAGAAACAAAAUUGGUCGCAGCAA
...(((((((((((.(.(((((.......)))))).))))-))))))).........(((.(.(((...(......)....))).).))).... ( -28.70)
>DroEre_CAF1 17357 93 + 1
AUCGGUGACUUUGGCCUGGCUAUUGAACCUGGCUGACCAG-AGUCAGCUGGGAAAAAUGCAAGCAACAGAGAGAAACAAAAUUGGUCGCAACAA
....(((((((((..((.((.(((...((..((((((...-.))))))..))...))))).))...))))).....((....)).))))..... ( -26.90)
>DroPer_CAF1 30669 87 + 1
AAGGCUGACUUUGGCUUGGAUGUUGAACCUGGCUGCGUUGCGGUCAGCUGGGAAAAAUGCAGCCAACAAUUGGCAACCAA-------GCGGCAA
...(((.......((((((.(((..(...((((((((((.(((....))).....))))))))))....)..))).))))-------))))).. ( -32.81)
>consensus
AUCGCUGACUUUGGCCUGGCUAUUGAACCUGGCUGACCAG_AGUCAGCUGGGAAAAAUGCAAGCAAAAAAGAGAAACAAAAUUGGUCGCAGCAA
...((((....................((..((((((.....))))))..)).....((....)).......................)))).. (-17.60 = -18.22 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:46 2006