Locus 3555

Sequence ID 2L_DroMel_CAF1
Location 10,364,408 – 10,364,520
Length 112
Max. P 0.523139
window5618

overview

Window 8

Location 10,364,408 – 10,364,520
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.34
Mean single sequence MFE -32.60
Consensus MFE -25.08
Energy contribution -25.64
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -1.42
Structure conservation index 0.77
SVM decision value -0.02
SVM RNA-class probability 0.523139
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10364408 112 + 22407834
------GACGUCUGGCUUUUUUCUGGUGGCCAACAGUUGGCAACACUGCGGCACAGUAAUGUAUCCAGUUU--UUUUUACAUUGCUGCAGAAAGGUUUCUCGUCUCGCUGGUGACCUUAG
------((((...((((..((((((...(((..((((.(....))))).))).((((((((((........--....))))))))))))))))))))...)))).....(....)..... ( -34.80)
>DroSim_CAF1 6183 112 + 1
------GACGUCUGGCUAUUUUCUGGUGGCCAAUAGUUGGCAACACUGCGGCACAGUAAUGUAUCCAGUUU--UUUUUACAUUGCUGCAGAAAGGUUUCUCGUCUCGCUGGUGACCUUAG
------(((...((((((((....))))))))...)))(....).((((((((..((((............--...))))..)))))))).((((((.((.(.....).)).)))))).. ( -33.36)
>DroYak_CAF1 6168 112 + 1
------GAGAUCUGGCUUUUUUCUGGUGGCCAAUAGUUGGCAACACUGCAGCACAGUAAUGUAUCCAGUUU--UUUUUACAUUGCUGCAGAAAGGUUUCUCGUCUCGCUGGUGACCUUAG
------(((((..((..((((((((((.((((.....)))).)).........((((((((((........--....))))))))))))))))))..))..)))))...(....)..... ( -32.80)
>DroAna_CAF1 7220 116 + 1
UGGCUGGACA-UUGGCCAUUUUA---UAGCCAGUCGUUGGCAACACUGGAACACAGUAAUGUAUCUAGUUUCUUUUUUACAUUACUGCAGAAAGGUUUCUUAACUCGUCGGUGAUCUUAG
..((..(..(-(((((.......---..))))))..)..))..((((......((((((((((..............))))))))))..((..((((....))))..))))))....... ( -29.44)
>consensus
______GACAUCUGGCUAUUUUCUGGUGGCCAAUAGUUGGCAACACUGCAGCACAGUAAUGUAUCCAGUUU__UUUUUACAUUGCUGCAGAAAGGUUUCUCGUCUCGCUGGUGACCUUAG
............((((((((....)))))))).((((.(....))))).....((((((((((..............))))))))))....((((((.((.(.....).)).)))))).. (-25.08 = -25.64 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:26 2006