Locus 6179

Sequence ID 2R_DroMel_CAF1
Location 19,454,147 – 19,454,245
Length 98
Max. P 0.686283
window9895

overview

Window 5

Location 19,454,147 – 19,454,245
Length 98
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 75.84
Mean single sequence MFE -18.02
Consensus MFE -9.65
Energy contribution -9.43
Covariance contribution -0.22
Combinations/Pair 1.07
Mean z-score -1.73
Structure conservation index 0.54
SVM decision value 0.32
SVM RNA-class probability 0.686283
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19454147 98 + 20766785
CCUCCACCUAUCUAACUAGCCUUAAUCCUUAAUGG-GAUCUCUUUCUUAUAUAGCGUAUAUCUACCGCUAGCGGAGACGGAAAACACUACUGCUAUCCA
................((((....(((((....))-))).(((.((((...(((((.........)))))...)))).)))..........)))).... ( -18.80)
>DroPse_CAF1 2299 90 + 1
GGUACAC---AACAACU------AAUCGUUCAUAUUUUUGUUUUGCUUUAAUAGCGUAUAUCUACCGCUAGUGGAGAUGGUAAACACUACUGCUAUCCA
.((((..---(((((..------(((.......))).)))))..(((.....))))))).(((((.....)))))(((((((........))))))).. ( -14.30)
>DroSec_CAF1 2237 85 + 1
CCUCCGCCAACUUAACU-------------CAUGA-GAUCUCUUUCUUAUAUAGCGUAUAUCUACCGCUAGCGGAGACGGAAAACACUACUGCUAUCCA
.((((((..........-------------.((((-((......)))))).(((((.........)))))))))))..(((...((....))...))). ( -21.60)
>DroSim_CAF1 2066 85 + 1
CCUCCGCCAACCUAACU-------------UAUGG-GAUCUCUUUCUUAUAUAGCGUAUAUCUACCGCUAGCGGAGACGGAAAACACUACUGCUAUCCA
.((((((..........-------------(((((-((......)))))))(((((.........)))))))))))..(((...((....))...))). ( -21.90)
>DroEre_CAF1 4677 85 + 1
AGCCCAACUAUCCAACC-------------UAAUG-GAUCUCUUUCCUAUAUAGCGUAUAUCUACCGCUAGCGGAGACGGAAAACACUACUGCUAUCCA
(((.......((((...-------------...))-))(((.(((((....(((((.........)))))..))))).)))..........)))..... ( -17.20)
>DroPer_CAF1 2297 90 + 1
GGUACAC---AACAACU------AAUCGUUCAUAUUUUUGUUUUGCUUUAAUAGCGUAUAUCUACCGCUAGUGGAGAUGGUAAACACUACUGCUAUCCA
.((((..---(((((..------(((.......))).)))))..(((.....))))))).(((((.....)))))(((((((........))))))).. ( -14.30)
>consensus
CCUCCACC_AACCAACU_____________CAUGG_GAUCUCUUUCUUAUAUAGCGUAUAUCUACCGCUAGCGGAGACGGAAAACACUACUGCUAUCCA
..................................................((((((((..(((.(((....)))))).(.....)..))).)))))... ( -9.65 =  -9.43 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:46 2006