Locus 5072

Sequence ID X_DroMel_CAF1
Location 13,265,373 – 13,265,490
Length 117
Max. P 0.905630
window8241

overview

Window 1

Location 13,265,373 – 13,265,490
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.27
Mean single sequence MFE -23.83
Consensus MFE -7.71
Energy contribution -10.51
Covariance contribution 2.80
Combinations/Pair 1.00
Mean z-score -2.28
Structure conservation index 0.32
SVM decision value 1.04
SVM RNA-class probability 0.905630
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13265373 117 + 22224390
CAGCCUGAUUAGAUUGAUCGCAAUUUAAUUAAUGAGUUCCUAGCUUG-AAGCUUAUACCU-UCCCACUUACUGGAAAAUUAAUUGAGUUGCUACAAUAAUAUC-GAAUCGUAUAAAUCCC
.....((((...((((...((((((((((((((...((((.((...(-(((.......))-))...))....)))).))))))))))))))..))))...)))-)............... ( -24.80)
>DroSec_CAF1 9815 117 + 1
CAGCCUGAUUAGAUUGAUCGCAAUUUAAUUAAUGAGUUCCUAGCUUGGAAGUUUAUACCU-UC-CACUUACUGGAAAAUUAAUUGAGUUGCCACAAUACUAUC-GAAUCGUAUAAAUCCC
.....((((...((((...((((((((((((((...((((.....((((((.......))-))-))......)))).))))))))))))))..))))...)))-)............... ( -29.90)
>DroSim_CAF1 10195 117 + 1
CAGCCUGAUUAGAUUGAUCGCAAUUUAAUUAAUGAGUUCCCAGCUUGGAAGUUUAUACCU-UC-CACUUACUGGAAAAUUAAUUGAGUUGCCACAAUACUAUC-GAAUCGUAUAAAUCCC
.....((((...((((...((((((((((((((...((((.((..((((((.......))-))-))....)))))).))))))))))))))..))))...)))-)............... ( -29.70)
>DroEre_CAF1 11762 100 + 1
CACGCUGAUUAGAUUGAUCGCAAUUUAAUUAAUGUGUUCCCAUUUUG--AACUUAUACCU-UC-CACUCCCUCGAAAAUGAUGUGAUC----------------CUAUCUGAGAAAUCCU
((((.(((((((((((....))))))))))).))))(((.(((((((--(..........-..-.......))))))..((((.....----------------.)))))).)))..... ( -14.51)
>DroYak_CAF1 10137 117 + 1
CAUGCUGAUUAGAUUGAUCGCAAUUUAAUUAAUGAGUUUCCACUUUC--AAUUUAUGCUAUCC-CACUUACUGCAAAAUGAUUCGAGUUGGCACACUAACAUCACAAACUUAUUAAUUCC
..(((.((((.....)))))))....(((((((((((((......((--(.(((.(((.....-........)))))))))...(((((((....))))).))..))))))))))))).. ( -20.22)
>consensus
CAGCCUGAUUAGAUUGAUCGCAAUUUAAUUAAUGAGUUCCCAGCUUG_AAGUUUAUACCU_UC_CACUUACUGGAAAAUUAAUUGAGUUGCCACAAUAAUAUC_GAAUCGUAUAAAUCCC
......((((.....))))((((((((((((((...((((................................)))).))))))))))))))............................. ( -7.71 = -10.51 +   2.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:20 2006