Locus 7636

Sequence ID X_DroMel_CAF1
Location 19,047,963 – 19,048,071
Length 108
Max. P 0.855701
window12534 window12535

overview

Window 4

Location 19,047,963 – 19,048,071
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -31.87
Consensus MFE -30.07
Energy contribution -30.73
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.99
Structure conservation index 0.94
SVM decision value 0.81
SVM RNA-class probability 0.855701
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19047963 108 + 22224390
ACGAAAGCUCUGCUCCUCCAGAGGAAACCUCAUCAGCGCCCGAGCAGACAUCUUCCGCUCCCGAAGAAACCUCCUCCGCUCCUGCAGAGCCAGAGAGUUCUAGCACUU
..(((..((((((((.....((((...))))......((..((((.((..(((((.......))))).......)).))))..)).))).)))))..)))........ ( -28.80)
>DroSec_CAF1 666 108 + 1
AGGAAAGCUCUGCUGCUCCCGAGGAAACCUCAUCCGCACCCGAGCAGACAUCUUCCGCUCCCGAAGAAACACCUUCCGCUCCUGCAGAGCCAGAGAGUUCUAGCUCUU
......(((((((.......((((...))))....((....((((.((.....)).))))..((((......)))).))....)))))))..((((((....)))))) ( -32.90)
>DroSim_CAF1 1124 108 + 1
AGGAAAGCUCUGCUGCUCCCGAGGAAACCUCAUCCGCACCCGAGCAGACAUCUUCCGCUCCCGAAGAAACAUCUUCCGCUCCUGCAGAGCCAGAGAGUUCUAGCUCUU
......(((((((.......((((...))))....((....((((.((.....)).))))..(((((....))))).))....)))))))..((((((....)))))) ( -33.90)
>consensus
AGGAAAGCUCUGCUGCUCCCGAGGAAACCUCAUCCGCACCCGAGCAGACAUCUUCCGCUCCCGAAGAAACAUCUUCCGCUCCUGCAGAGCCAGAGAGUUCUAGCUCUU
......(((((((.......((((...))))....((....((((.((.....)).))))..((((......)))).))....)))))))..((((((....)))))) (-30.07 = -30.73 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,047,963 – 19,048,071
Length 108
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 94.44
Mean single sequence MFE -44.37
Consensus MFE -36.86
Energy contribution -37.20
Covariance contribution 0.34
Combinations/Pair 1.06
Mean z-score -2.24
Structure conservation index 0.83
SVM decision value 0.22
SVM RNA-class probability 0.637812
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19047963 108 - 22224390
AAGUGCUAGAACUCUCUGGCUCUGCAGGAGCGGAGGAGGUUUCUUCGGGAGCGGAAGAUGUCUGCUCGGGCGCUGAUGAGGUUUCCUCUGGAGGAGCAGAGCUUUCGU
.((.((((((....)))))).))......(((((((..(((((((((((((((((.....)))))))(((.(((.....))).))).))))))))))....))))))) ( -43.90)
>DroSec_CAF1 666 108 - 1
AAGAGCUAGAACUCUCUGGCUCUGCAGGAGCGGAAGGUGUUUCUUCGGGAGCGGAAGAUGUCUGCUCGGGUGCGGAUGAGGUUUCCUCGGGAGCAGCAGAGCUUUCCU
.(((((((((....)))))))))((....))(((((((....(....)(((((((.....))))))).(.(((...(((((...)))))...))).)...))))))). ( -44.80)
>DroSim_CAF1 1124 108 - 1
AAGAGCUAGAACUCUCUGGCUCUGCAGGAGCGGAAGAUGUUUCUUCGGGAGCGGAAGAUGUCUGCUCGGGUGCGGAUGAGGUUUCCUCGGGAGCAGCAGAGCUUUCCU
.(((((((((....)))))))))((..(((((((...((((((....)))))).......))))))).(.(((...(((((...)))))...))).)...))...... ( -44.40)
>consensus
AAGAGCUAGAACUCUCUGGCUCUGCAGGAGCGGAAGAUGUUUCUUCGGGAGCGGAAGAUGUCUGCUCGGGUGCGGAUGAGGUUUCCUCGGGAGCAGCAGAGCUUUCCU
.(((((((((....)))))))))((..(((((((...((((((....)))))).......)))))))..))..(((.((((...))))..((((......))))))). (-36.86 = -37.20 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:58 2006