Locus 2080

Sequence ID 2L_DroMel_CAF1
Location 5,587,426 – 5,587,538
Length 112
Max. P 0.852192
window3365

overview

Window 5

Location 5,587,426 – 5,587,538
Length 112
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 79.36
Mean single sequence MFE -41.38
Consensus MFE -28.15
Energy contribution -29.27
Covariance contribution 1.12
Combinations/Pair 1.22
Mean z-score -1.76
Structure conservation index 0.68
SVM decision value 0.79
SVM RNA-class probability 0.852192
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5587426 112 - 22407834
AGGGUCGUUGAGGACUGGUGGCUAAAAAAGCAGAGUCAGCAGCAGGCGCAGCGCGAGGAGAAGCGACGCGCCAUGUUGUCCAAGGCCUUGAAAGAGGAA------CAGCGCCGGCAAC
..((.(((((.((((.(.(((((..........))))).)(((((((((..(((........)))..))))).))))))))....((((....))))..------)))))))...... ( -44.20)
>DroSec_CAF1 31461 112 - 1
AGGGUCGUAGAGGACUGGUGGCUAAAGAAGCAGCGUCAGCAGCAGGCGCAGCGCGAGGAGAAGCGACGCGCCAUGUUGUCCAAGGCCUUGAAAGAGGAA------CAGCGCCGGCAAA
..((((......))))(.((((.......((.((....)).)).(((((..(((........)))..)))))..(((((......((((....)))).)------)))))))).)... ( -40.00)
>DroSim_CAF1 33166 112 - 1
AGGGUCGUAGAGGACUGGUGGCUAAAGAAGCAGCGUCAGCAGCAGGCGCAGCGCGAGGAGAAGCGACGCGCCAUGUUGUCCAAGGCCUUGAAAGAGGAA------CAGCGCCGGCAAA
..((((......))))(.((((.......((.((....)).)).(((((..(((........)))..)))))..(((((......((((....)))).)------)))))))).)... ( -40.00)
>DroEre_CAF1 31474 112 - 1
AGAGUCGUGGAGGACUGGUGGCUCAGGAAGCAGGGUCAGCAGCAGGCGCAACGCGAGGAGAAGCGACGCGCCAUGUUGUCCAAGGUCCUGGAGGAGGAA------CAGCGCCGGCAGG
..............(((.((((((((((.....((.(((((...(((((..(((........)))..))))).))))).))....)))))).(......------)...)))).))). ( -44.60)
>DroYak_CAF1 31791 112 - 1
AGGGUCGUGGAGGACUGGUGGCUAAAGAAGCAGCGUCAGCAGCAGGCGCAGCGCGAGGAGAGGCGACGCGCCAUGUUGUCCAAGGCCUUCGAGGAGGAA------CAGCGCCGGCAAC
((((((.((((.(((((((.(((.....))).(((((.((.((....)).))((........))))))))))).))).)))).))))))...((.(...------...).))...... ( -40.30)
>DroPer_CAF1 41815 112 - 1
CUGGAGCUUGAAAACUGGCGUCUGAAGAAGAUCCAGAUGCAGAGGUCCAAGCGCCAGGAGGAACAACUGGCGAAGAU---UAAG---CACGAAGAGGAUCUAUUCCAUCGCCAGAGAC
((((.(((((...(((.(((((((.........)))))))...))).))))).)))).........(((((((.(..---....---).......(((.....))).))))))).... ( -39.20)
>consensus
AGGGUCGUAGAGGACUGGUGGCUAAAGAAGCAGCGUCAGCAGCAGGCGCAGCGCGAGGAGAAGCGACGCGCCAUGUUGUCCAAGGCCUUGAAAGAGGAA______CAGCGCCGGCAAC
..............(((((((((.....))).......(((((((((((..(((........)))..))))).))))))......((((....))))...........)))))).... (-28.15 = -29.27 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:07 2006