Locus 5536

Sequence ID X_DroMel_CAF1
Location 14,323,415 – 14,323,528
Length 113
Max. P 0.854368
window8989

overview

Window 9

Location 14,323,415 – 14,323,528
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.69
Mean single sequence MFE -27.70
Consensus MFE -18.05
Energy contribution -19.93
Covariance contribution 1.88
Combinations/Pair 1.22
Mean z-score -2.04
Structure conservation index 0.65
SVM decision value 0.80
SVM RNA-class probability 0.854368
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14323415 113 - 22224390
AAAGUCAGGAUUACUAUG--ACUCGGACUUUCGCAAGUACCAAAGGAACCCUAUAUCAGGGCUUAAAGUAUUCUGGACAAAGCGUUUGCUUAUAUGAAAGUUGUAAGCAUCUU-----AU
...(((.(((.((((.((--(...((((((....)))).)).......((((.....)))).))).)))).))).)))........((((((((.......))))))))....-----.. ( -26.00)
>DroSec_CAF1 35882 113 - 1
AAAGUCAGGAUUACUAUA--GCUCGGACUUUCCCAAGUACCAAAGGUACCCUAUAAGAGGUCUGAGAGUAUUCUGGACAAGGCGAUUACUUAUAUGAAAGUUAUAAGCAUCUU-----AU
...(((.(((.((((...--.((((((((((.....(((((...))))).......)))))))))))))).))).)))...((....((((......)))).....)).....-----.. ( -29.30)
>DroSim_CAF1 33192 112 - 1
AAAGUCAGGAUUACUAUA--ACUCGGACUUUCGCAAGUACCAAAGGUACCCUAUAAAAGGUCUGAGAGUAUUUUGGACUAAGCGAUUGCUUAUAUGAAAGUUAUAAGCAUCUU-----A-
..((((..((.((((...--.((((((((((.....(((((...))))).......)))))))))))))).))..))))....(((.(((((((.......))))))))))..-----.- ( -32.50)
>DroYak_CAF1 37447 117 - 1
AAAGUCAGGAUUAUUAAUAUACUACGAGUUUGGCAAGUACCAAA-GUACCCUACAAAAGGG--UAGAGUAUUAUGGGCAAAGCAUAUGCUUAAAUUUAUGUUAUAAGUACCUUAUGUUAU
...((.((((((..(((((((....((((...((.....(((.(-((((.((((......)--))).))))).))).....))....)))).....)))))))..))).))).))..... ( -23.00)
>consensus
AAAGUCAGGAUUACUAUA__ACUCGGACUUUCGCAAGUACCAAAGGUACCCUAUAAAAGGGCUGAGAGUAUUCUGGACAAAGCGAUUGCUUAUAUGAAAGUUAUAAGCAUCUU_____AU
...(((.(((.((((......((((((((((.....((((.....)))).......)))))))))))))).))).)))........((((((((.......))))))))........... (-18.05 = -19.93 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:25 2006