Locus 6317

Sequence ID 2L_DroMel_CAF1
Location 17,615,015 – 17,615,105
Length 90
Max. P 0.806485
window10096 window10097

overview

Window 6

Location 17,615,015 – 17,615,105
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 95.93
Mean single sequence MFE -28.32
Consensus MFE -24.15
Energy contribution -25.65
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.18
Structure conservation index 0.85
SVM decision value 0.63
SVM RNA-class probability 0.806485
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17615015 90 + 22407834
AGAGACACCCACUUACUCUUGCAUAUAUGCAUAAAGGUGGGUGUGUGUGUUAUGUGGAAGGCAUCUCAAAUGGCGUCUCAUUGUUGUUGC
.(((((((((((((.....((((....))))...))))))))))((((.((......)).))))))).((..(((......)))..)).. ( -27.80)
>DroSec_CAF1 10267 90 + 1
AGAGACACCCACUUACUCUUGCAUAUAUGCAUAAAGGUGGGUGUGUGUGUUAUGUGGCAGGCAUCUCAAAUGGCGUCUCAUUGUUGUUGC
.(((((((((((((.....((((....))))...)))))))))(((.((((....)))).))))))).((..(((......)))..)).. ( -30.60)
>DroSim_CAF1 505 90 + 1
AGAGACACCCACUUACUCUUGCAUAUAUGCAUAAAGGUGGGUGUGUGUGUUAUGUGGCAGGCAUCUCAAAUGGCGUCUCAUUGUUGUUGC
.(((((((((((((.....((((....))))...)))))))))(((.((((....)))).))))))).((..(((......)))..)).. ( -30.60)
>DroYak_CAF1 10273 85 + 1
-----CACCCACUUACUCUUGCAUAUAUGCAUAAAGGUGGGUGUGUGUGUUAUGUGGAAGGCAUCCCAAAUGGCGUCUCAUUGUUGUUGC
-----(((((((((.....((((....))))...)))))))))((.(((((((.(((........))).)))))).).)).......... ( -24.30)
>consensus
AGAGACACCCACUUACUCUUGCAUAUAUGCAUAAAGGUGGGUGUGUGUGUUAUGUGGAAGGCAUCUCAAAUGGCGUCUCAUUGUUGUUGC
.(((((((((((((.....((((....))))...)))))))))(((.((((....)))).))))))).((..(((......)))..)).. (-24.15 = -25.65 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,615,015 – 17,615,105
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 95.93
Mean single sequence MFE -20.70
Consensus MFE -19.58
Energy contribution -19.82
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.95
SVM decision value 0.58
SVM RNA-class probability 0.788667
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17615015 90 - 22407834
GCAACAACAAUGAGACGCCAUUUGAGAUGCCUUCCACAUAACACACACACCCACCUUUAUGCAUAUAUGCAAGAGUAAGUGGGUGUCUCU
...........((((((((...((.((.....))))...........(((....((((.((((....))))))))...))))))))))). ( -21.10)
>DroSec_CAF1 10267 90 - 1
GCAACAACAAUGAGACGCCAUUUGAGAUGCCUGCCACAUAACACACACACCCACCUUUAUGCAUAUAUGCAAGAGUAAGUGGGUGUCUCU
...........((((((((...((..(((.......)))..))....(((....((((.((((....))))))))...))))))))))). ( -21.00)
>DroSim_CAF1 505 90 - 1
GCAACAACAAUGAGACGCCAUUUGAGAUGCCUGCCACAUAACACACACACCCACCUUUAUGCAUAUAUGCAAGAGUAAGUGGGUGUCUCU
...........((((((((...((..(((.......)))..))....(((....((((.((((....))))))))...))))))))))). ( -21.00)
>DroYak_CAF1 10273 85 - 1
GCAACAACAAUGAGACGCCAUUUGGGAUGCCUUCCACAUAACACACACACCCACCUUUAUGCAUAUAUGCAAGAGUAAGUGGGUG-----
(((.(...((((......))))...).))).................(((((((((((.((((....))))))))...)))))))----- ( -19.70)
>consensus
GCAACAACAAUGAGACGCCAUUUGAGAUGCCUGCCACAUAACACACACACCCACCUUUAUGCAUAUAUGCAAGAGUAAGUGGGUGUCUCU
(((.(...((((......))))...).)))................((((((((((((.((((....))))))))...)))))))).... (-19.58 = -19.82 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:09 2006