Locus 2828

Sequence ID 3R_DroMel_CAF1
Location 7,576,943 – 7,577,046
Length 103
Max. P 0.998434
window4571

overview

Window 1

Location 7,576,943 – 7,577,046
Length 103
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 91.76
Mean single sequence MFE -12.20
Consensus MFE -11.56
Energy contribution -11.40
Covariance contribution -0.16
Combinations/Pair 1.06
Mean z-score -1.95
Structure conservation index 0.95
SVM decision value 3.10
SVM RNA-class probability 0.998434
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7576943 103 - 27905053
AGUGUUUCGCAACGAAACAAAAAAAAAACAAAUAAUAACUAUGAGUUGA-AUUUACAAGCAGCGCUGCUUAAAAUCCGAUAAAACUACACUCA-AACAAACAGCA
..(((((((...)))))))......................(((((((.-((((..(((((....))))).)))).))..........)))))-........... ( -12.80)
>DroSec_CAF1 8954 100 - 1
AAUGUUUCGCAACGAAACAAAAAAA----AAAUAAUAACUAUGAGUUAA-AUUUACAAGCAGAGCUGCUUAAAAUCCGAUAAAACUACACUAAAAACAAACAGCA
..(((((((...)))))))......----......((((.....)))).-......(((((....)))))................................... ( -11.50)
>DroSim_CAF1 9388 101 - 1
AAUGUUUCGCAACGAAACAAAAAAA---UAAAUAAUAACUAUGAGUUAA-AUUUACAAGCAGAGCUGCUUAAAAUCCGAUAAAACUACACUAAAAACAAACAGCA
..(((((((...)))))))......---.......((((.....)))).-......(((((....)))))................................... ( -11.50)
>DroEre_CAF1 9353 98 - 1
AAUGUUUCGCAACGAAACAAAAAA------AAUAAUAACUAUGAGUUAAAAUUUAUAAGCAGCGCUGCUUAAAACCCGAUACAACUACAGUCA-AACAAAAAGCA
..(((((((...))))))).....------.....((((.....)))).......((((((....))))))......................-........... ( -12.90)
>DroYak_CAF1 9019 99 - 1
AAUGUUUCGCAACGAAACAAAAAAA----UAAUAAUAACUAUGAGUUAA-AUUUACAAGCAGCGCUGCUUAAAAUCCGAUAAUACUACACUCA-AACAAACAGCA
..(((((((...)))))))......----............(((((...-......(((((....))))).......(......)...)))))-........... ( -12.30)
>consensus
AAUGUUUCGCAACGAAACAAAAAAA____AAAUAAUAACUAUGAGUUAA_AUUUACAAGCAGCGCUGCUUAAAAUCCGAUAAAACUACACUCA_AACAAACAGCA
..(((((((...)))))))................((((.....))))........(((((....)))))................................... (-11.56 = -11.40 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:39 2006