Locus 1640

Sequence ID 3R_DroMel_CAF1
Location 4,774,541 – 4,774,646
Length 105
Max. P 0.625254
window2698

overview

Window 8

Location 4,774,541 – 4,774,646
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.61
Mean single sequence MFE -15.52
Consensus MFE -11.02
Energy contribution -11.02
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.71
SVM decision value 0.19
SVM RNA-class probability 0.625254
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4774541 105 - 27905053
-----------UUAUUCUCCA--UUUAAAAUUUAUCUUUAUGUCAAUUAAAAGUAAUUUUCCACU--CUCAUCUCAUAGUUUUCGGCCACUUAAUUGCAUUCAGCUAACAAUGUGGCUAA
-----------..........--....(((.(((..((((.......))))..))).))).....--.................((((((......((.....)).......)))))).. ( -11.82)
>DroSec_CAF1 10074 105 - 1
-----------UUCUUCUCCA--UUUUAAAUUUAUCUUUAUGUCAAUUAAAACUAAUUUUCCACU--CUCAUCCCAUAGUUUUCGGCCACUUAAUUGCAUUCAGCUAACAAUGUGGCUAA
-----------..........--.........................(((((((..........--.........))))))).((((((......((.....)).......)))))).. ( -12.23)
>DroEre_CAF1 10177 116 - 1
UGGCGACUGAUUUCUUCUCCG--UUUUAAAUUCAGCUUUAUGUCAAUUAAAAGCCAUUUUCCACU--CUCAUCUCAUAGUUUUCGGCCACUUAAUUGCAUUCAGCUAACAAUGUGGCUAA
((((.((.((.....))....--..........((((..(((.(((((((..(((..........--.................)))...))))))))))..))))......)).)))). ( -19.53)
>DroYak_CAF1 10319 116 - 1
AGAUAUCUGGUUUCUUCUCCA--UUUUUAAUUUAUCUUUAUGUCAAUUAAAAGUAAUUUUCCACU--CUCAUCCCAAAGUUUUCGGCCACUUAAUUGCAUUCAGCUAACAAUGUGGCUAA
.((...((((........))(--(((((((((.((......)).))))))))))...........--..........))...))((((((......((.....)).......)))))).. ( -16.62)
>DroAna_CAF1 10049 120 - 1
UUUCAUCUAUUUUCCUCUUCAGUCUUUUAAUUAAACUUUAUGUCAAUUAAAAGUCAUUUUCAACUCUCUCAUCUUUCUGUUUUCGGCCACUUAAUUGCAUCCAGCUAACAAUGUGGCUAA
.....................(.(((((((((..((.....)).))))))))).).............................((((((......((.....)).......)))))).. ( -17.42)
>consensus
______CU__UUUCUUCUCCA__UUUUAAAUUUAUCUUUAUGUCAAUUAAAAGUAAUUUUCCACU__CUCAUCUCAUAGUUUUCGGCCACUUAAUUGCAUUCAGCUAACAAUGUGGCUAA
....................................................................................((((((......((.....)).......)))))).. (-11.02 = -11.02 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:30 2006