Locus 5004

Sequence ID 2R_DroMel_CAF1
Location 16,303,774 – 16,303,885
Length 111
Max. P 0.759292
window8011

overview

Window 1

Location 16,303,774 – 16,303,885
Length 111
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 81.05
Mean single sequence MFE -30.30
Consensus MFE -18.67
Energy contribution -19.57
Covariance contribution 0.89
Combinations/Pair 1.25
Mean z-score -2.09
Structure conservation index 0.62
SVM decision value 0.50
SVM RNA-class probability 0.759292
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16303774 111 + 20766785
UGUACCAAUCUUCGUGUUCAUCUUCUGCCCCA-GCAGUAUUUUAUAUACAACGUUGGCCAUCCUUGUGGACCAUUAGGUCUAUUUUUGGUAGCUAAAUUUGAGUCAGAAGUG
.........((((.((((((..((..((.(((-((.((((.....))))...)))))(((.....(((((((....)))))))...)))..))..))..)))).)))))).. ( -26.40)
>DroSec_CAF1 7221 109 + 1
UGACCCAAUCUUCGUGUUCAUCUUCUGCCCCAGGCAGUAUUUUAUAUA---CGUUGGCCAUCCUUGUGGACCAUUAGGUCUAUUUUUGGUAGCUAAAUUUGAGUCAGAAGUG
((((.(((....(((((.......(((((...)))))........)))---))(((((...((..(((((((....)))))))....))..)))))..))).))))...... ( -31.16)
>DroSim_CAF1 6544 109 + 1
UGACCCAAUCUUCGUGUUCAUCUUCUGCCCCAGGCAGUAUUUUAUAUA---CGUUGGCCAUCCUUGUGGACCAUUAGGUCUAUUUUUGGUAGCUAAAUUUGAGUCAGAAGUG
((((.(((....(((((.......(((((...)))))........)))---))(((((...((..(((((((....)))))))....))..)))))..))).))))...... ( -31.16)
>DroEre_CAF1 6098 109 + 1
UGAUCCAAUCAUCUUGUUAUUCUCCCGCCCAAGGCAGUGUUUUAUACA---CGUUGGCCAUCCUUGUGGACCAUUAGGCCUAUUUUCGGUGGCCGAAUUUGAGUCAAAAGUG
(((..(((..................(((...))).((((.....)))---).(((((((((...((((.((....)).))))....)))))))))..)))..)))...... ( -29.10)
>DroYak_CAF1 6748 109 + 1
UGACCCAAUCAUCUUGUUAUUCUGCUGCCCAAGGCAGAGUUUUAUAUA---CGCUGGCCAUCCUUGUGGACCAUUAGGUCUAUUUUUGGUGGCUAAAUUUGAGUCAGAAGUG
((((.(((......((..((((((((......))))))))..))....---...((((((((...(((((((....)))))))....))))))))...))).))))...... ( -36.20)
>DroAna_CAF1 7476 102 + 1
CGAACCAAUCAUCU----------CUAUUCCAGACAGACUCAUCUGCUUGGUUUCGGCCAUCCUUGUAGGCCAUUACGUCUAUUUUCGGUGGCCACAUUUACGUCAGAAGUG
.........((..(----------((...(((..((((....))))..)))....(((((((...((((((......))))))....)))))))...........)))..)) ( -27.80)
>consensus
UGACCCAAUCAUCGUGUUCAUCUUCUGCCCCAGGCAGUAUUUUAUAUA___CGUUGGCCAUCCUUGUGGACCAUUAGGUCUAUUUUUGGUAGCUAAAUUUGAGUCAGAAGUG
.(((.(((................((((.....))))................(((((...((..(((((((....)))))))....))..)))))..))).)))....... (-18.67 = -19.57 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:15 2006