Locus 6005

Sequence ID 2L_DroMel_CAF1
Location 16,913,921 – 16,914,014
Length 93
Max. P 0.994229
window9538 window9539

overview

Window 8

Location 16,913,921 – 16,914,014
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 96.34
Mean single sequence MFE -21.88
Consensus MFE -19.90
Energy contribution -19.74
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -1.95
Structure conservation index 0.91
SVM decision value 2.46
SVM RNA-class probability 0.994229
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16913921 93 + 22407834
GUCUUUGUGUUCAAGCUCAUCUUGUUUUGAUUUUCAUUGCGAUUUUUGUGGGUCCUUGACAUUUUGGUGGCACUUAAUUUAAACCGCCACCAG
......((((.(((((((((.((((..((.....))..)))).....)))))..))))))))..(((((((..............))))))). ( -22.64)
>DroSec_CAF1 26591 93 + 1
GUCUUUGUGUUCAAGCUCAUCUUGUUUUGAUUUUCAUUGCGAUUUUUGUGGGUCCUUGACAUUUUGGUGGCACUUAAUUUAAACCGCCACCAG
......((((.(((((((((.((((..((.....))..)))).....)))))..))))))))..(((((((..............))))))). ( -22.64)
>DroSim_CAF1 31209 93 + 1
GUCUUUGUGUUCAAGCUCAUCUUGUUUUGAUUUUCAUUGCGAUUUUUGUGGGUCCUUGACAUUUUGGUGGCACUUAAUUUAAACCGCCACCAG
......((((.(((((((((.((((..((.....))..)))).....)))))..))))))))..(((((((..............))))))). ( -22.64)
>DroEre_CAF1 28820 93 + 1
GUCUUUAUGUUUAAGCUCCUCUUGUUUUGAUUUCCAUUGCGAUUUUUGUGGGUUCUUGACAUUUUGGUGGCACUUAAUUUGAACCGCCACCAG
......(((((..((((((..((((..((.....))..)))).....).)))))...)))))..(((((((..............))))))). ( -19.94)
>DroYak_CAF1 26399 93 + 1
GUCUUUGUGUUUAGGCUCAUCUUGUUUUGAUUUUCAUUGCGAUUUUUGUGGGUCCUUGACAUUUUCGUGGCACUUAAUUUAAACCGCCACCAG
......(((((.((((((((.((((..((.....))..)))).....))))).))).)))))....(((((..............)))))... ( -21.54)
>consensus
GUCUUUGUGUUCAAGCUCAUCUUGUUUUGAUUUUCAUUGCGAUUUUUGUGGGUCCUUGACAUUUUGGUGGCACUUAAUUUAAACCGCCACCAG
......((((.(((((((((.((((..((.....))..)))).....)))))..))))))))..(((((((..............))))))). (-19.90 = -19.74 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,913,921 – 16,914,014
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 96.34
Mean single sequence MFE -17.06
Consensus MFE -13.90
Energy contribution -14.70
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.81
SVM decision value 0.05
SVM RNA-class probability 0.558349
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16913921 93 - 22407834
CUGGUGGCGGUUUAAAUUAAGUGCCACCAAAAUGUCAAGGACCCACAAAAAUCGCAAUGAAAAUCAAAACAAGAUGAGCUUGAACACAAAGAC
.((((((((.((......)).))))))))...(((((((............((.....))...(((........))).)))).)))....... ( -18.40)
>DroSec_CAF1 26591 93 - 1
CUGGUGGCGGUUUAAAUUAAGUGCCACCAAAAUGUCAAGGACCCACAAAAAUCGCAAUGAAAAUCAAAACAAGAUGAGCUUGAACACAAAGAC
.((((((((.((......)).))))))))...(((((((............((.....))...(((........))).)))).)))....... ( -18.40)
>DroSim_CAF1 31209 93 - 1
CUGGUGGCGGUUUAAAUUAAGUGCCACCAAAAUGUCAAGGACCCACAAAAAUCGCAAUGAAAAUCAAAACAAGAUGAGCUUGAACACAAAGAC
.((((((((.((......)).))))))))...(((((((............((.....))...(((........))).)))).)))....... ( -18.40)
>DroEre_CAF1 28820 93 - 1
CUGGUGGCGGUUCAAAUUAAGUGCCACCAAAAUGUCAAGAACCCACAAAAAUCGCAAUGGAAAUCAAAACAAGAGGAGCUUAAACAUAAAGAC
.((((((((.((......)).))))))))..((((.(((..((........((......))..((.......))))..)))..))))...... ( -16.60)
>DroYak_CAF1 26399 93 - 1
CUGGUGGCGGUUUAAAUUAAGUGCCACGAAAAUGUCAAGGACCCACAAAAAUCGCAAUGAAAAUCAAAACAAGAUGAGCCUAAACACAAAGAC
...((((((.((......)).)))))).....(((..(((...........((.....))...(((........))).)))..)))....... ( -13.50)
>consensus
CUGGUGGCGGUUUAAAUUAAGUGCCACCAAAAUGUCAAGGACCCACAAAAAUCGCAAUGAAAAUCAAAACAAGAUGAGCUUGAACACAAAGAC
.((((((((.((......)).))))))))....(((.....................((.....))...((((.....))))........))) (-13.90 = -14.70 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:41 2006