Locus 3577

Sequence ID X_DroMel_CAF1
Location 9,598,178 – 9,598,278
Length 100
Max. P 0.868700
window5854

overview

Window 4

Location 9,598,178 – 9,598,278
Length 100
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 77.01
Mean single sequence MFE -25.85
Consensus MFE -18.52
Energy contribution -18.72
Covariance contribution 0.20
Combinations/Pair 1.26
Mean z-score -1.42
Structure conservation index 0.72
SVM decision value 0.86
SVM RNA-class probability 0.868700
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9598178 100 + 22224390
CAUGUUAUUGAUAUUGAA--------AUAU---AAUC-CGUUUCCAUCCUUUCAGGAUCAUCCCAGCUUGAGAGGAACUCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
.......(((.(((((..--------....---....-........((((((((((..........)))))))))).....((.((((.....)))))).)))))))).... ( -25.50)
>DroSec_CAF1 56847 83 + 1
-----------------A--------AUAU---AAUC-CGUUUGUAUCCUUUCAGGAUCAUCCCAGCUUGAGAGGAACUCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
-----------------.--------....---....-.(((.((.((((((((((..........))))))))))(((..((.((((.....))))))..))))))))... ( -24.80)
>DroSim_CAF1 43350 83 + 1
-----------------A--------AUAU---AAUC-CGUUUGUAUCCUUUCAGGAUCAUCCCAGCUUGAGAGGAACUCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
-----------------.--------....---....-.(((.((.((((((((((..........))))))))))(((..((.((((.....))))))..))))))))... ( -24.80)
>DroEre_CAF1 61655 91 + 1
-----------------AUGCAUUGCUCAU---AAUA-CUUUGCUAUCCUUUCAGGAUCAUCCCAGUUUGAGGGGCACCCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
-----------------.(((((((.(((.---...(-((.....((((.....))))......))).)))(((....)))((.((((.....)))))).)))))))..... ( -27.40)
>DroYak_CAF1 60256 91 + 1
-----------------AUGUCUAGCUCAU---AAUU-CUUUUGUAUCCUUACAGGAUCAUCCCAGCUUGAGGGGAACUCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
-----------------(((.(((((....---....-....((((....))))(((...((((........))))..)))))))).)))(((((....)))))........ ( -24.30)
>DroMoj_CAF1 82466 88 + 1
---------------------CGG--U-ACCCCAAUUUCUUCACGCUCUUUUUAGGAUCAUCCUAGUCUGCGCGGCACUCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
---------------------.((--.-...))..........(((.(...(((((.....)))))...).)))(((((..((.((((.....))))))..)))))...... ( -28.30)
>consensus
_________________A________AUAU___AAUC_CGUUUCUAUCCUUUCAGGAUCAUCCCAGCUUGAGAGGAACUCCGCUGGCCAUGCUGGCCGCCCAGUGCAACAAG
..............................................((((((((((..........))))))))))(((..((.((((.....))))))..)))........ (-18.52 = -18.72 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:51 2006