Locus 4953

Sequence ID X_DroMel_CAF1
Location 12,928,142 – 12,928,254
Length 112
Max. P 0.982523
window8072

overview

Window 2

Location 12,928,142 – 12,928,254
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.59
Mean single sequence MFE -31.74
Consensus MFE -20.29
Energy contribution -20.37
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -2.42
Structure conservation index 0.64
SVM decision value 1.92
SVM RNA-class probability 0.982523
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12928142 112 + 22224390
UGGUAUCGAUAGCUUUU-CAUCUGGUAUC--AGGGUUCCAUUGACGUGGAGAACCUUUGCGAUUUGCAAGGCAUUCCCGCACUACGUGAGUUUCCUAUCGAUAUCGAA-----GAACUCG
.(((((((((((...((-(((.((((.((--(((....).)))).((((.(((.((((((.....))))))..))))))))))).)))))....)))))))))))...-----....... ( -36.60)
>DroSec_CAF1 4818 86 + 1
UGGUAUCGAUACCUUUU-CAUCUGGUAUC--AGGGUUCCAUUGACGUGGAA--------------------------CUCACUACGUGAGUUUCCUAUCGAUAUCGAA-----GAACUCG
.((((((((((....((-(((.((((...--.(((((((((....))))))--------------------------))))))).))))).....))))))))))...-----....... ( -29.40)
>DroSim_CAF1 4770 111 + 1
UGGUAUCGAUACCUUUU-CAUCUGGUAUC--AGGGUUCCAUUGACGUGGAGAACGUUUGCGAUUUGCAAGGCAUUU-CGCACUACGUGAGUUUCCUAUCGAUAUCGAA-----GAACUCG
.((((((((((((....-.....))))))--((((((((((....)))))).((((.(((((..(((...)))..)-))))..)))).....))))...))))))...-----....... ( -36.60)
>DroEre_CAF1 4573 116 + 1
UGGUAUCGAUACCUUUC-CAUCUGGUAUC--AGGGCUCCAUUGACGUGGAUACCGUACUCGAUUUAAAAGACAUUC-CGCACUACGUGAGUUCCCUAUCGAUAUCGCAGCACAGAACACC
.((((((((((.((((.-.(((.(((((.--.((..(((((....)))))..))))))).)))...))))..((((-((.....)).))))....))))))))))............... ( -27.70)
>DroYak_CAF1 4585 101 + 1
-GAUAUCGAUACAUUUCUCAUCUGGUAUCACAGGGUUCCAUUGACGUGGA------------UUUCAAAGACAUUC-CGCACUACGUGAGUUUCCUAUCGAUAUCGAA-----GAACACC
-((((((((((.....(((((.((((.(((...(....)..))).(((((------------............))-))))))).))))).....))))))))))...-----....... ( -28.40)
>consensus
UGGUAUCGAUACCUUUU_CAUCUGGUAUC__AGGGUUCCAUUGACGUGGAGA_C_U___CGAUUUGAAAGACAUUC_CGCACUACGUGAGUUUCCUAUCGAUAUCGAA_____GAACUCG
.((((((((((((..........))))))..((((....(((.((((((................................)))))).))).))))...))))))............... (-20.29 = -20.37 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:48 2006