Locus 3600

Sequence ID X_DroMel_CAF1
Location 9,656,173 – 9,656,285
Length 112
Max. P 0.790667
window5894

overview

Window 4

Location 9,656,173 – 9,656,285
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.49
Mean single sequence MFE -26.60
Consensus MFE -19.80
Energy contribution -19.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.74
SVM decision value 0.59
SVM RNA-class probability 0.790667
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9656173 112 + 22224390
----UA-UUUCACUCACUCUGCG--GCGCUCUCUUUCAAGCACUUUAGUGCAGGCUAAUUACAAAAAGUGAAAACACAAUUCAUUUUGCUUGUGGUUUAUGCGCUUUCCUUGCUGCCGC-
----..-.............(((--(((((........))).....((((((....((((((((((((((((.......))))))))..))))))))..)))))).........)))))- ( -29.20)
>DroAna_CAF1 21040 108 + 1
UGAAGAGGCCGCCUCCCU--------CGCACUC---GGAGCACUUUAGUGCAGGCUAAUUACAAAAAGUGAAAACACAAUUCAUUUUGCUUGUGGUUUAUGCGUUUUCUUUGCCGCCAC-
.(((((.((.((((.((.--------.......---)).((((....)))))))).((((((((((((((((.......))))))))..))))))))...)).)))))...........- ( -27.40)
>DroSim_CAF1 5625 114 + 1
----UA-UCUCACUCACACUGCGCUGCGCUCUCUUUCGAGCACUUUAGUGCAGGCUAAUUACAAAAAGUGAAAACACAAUUCAUUUUGCUUGUGGUUUAUGCGCUUUCCUUGCUGCCAC-
----..-...........((((((((.((((......))))....))))))))((.((((((((((((((((.......))))))))..))))))))...))((.......))......- ( -29.20)
>DroYak_CAF1 5012 107 + 1
----UA-UCUCACUCACU--------CGCUCUCUUUCAAGCACUUUAGUGCAGGCUAAUUACAAAAAGUGAAAACACAAUUCAUUUUGCUUGUGGUUUAUGCGAUUUCCUUGCUGCCCCA
----..-...........--------.............((((....)))).(((.((((((((((((((((.......))))))))..))))))))...((((.....)))).)))... ( -20.60)
>consensus
____UA_UCUCACUCACU________CGCUCUCUUUCAAGCACUUUAGUGCAGGCUAAUUACAAAAAGUGAAAACACAAUUCAUUUUGCUUGUGGUUUAUGCGCUUUCCUUGCUGCCAC_
.......................................((((....)))).(((.((((((((((((((((.......))))))))..))))))))...(((.......))).)))... (-19.80 = -19.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:27 2006