Locus 3050

Sequence ID 3R_DroMel_CAF1
Location 8,091,823 – 8,091,941
Length 118
Max. P 0.664033
window4935

overview

Window 5

Location 8,091,823 – 8,091,941
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.18
Mean single sequence MFE -22.48
Consensus MFE -17.26
Energy contribution -17.30
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -1.52
Structure conservation index 0.77
SVM decision value 0.28
SVM RNA-class probability 0.664033
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8091823 118 + 27905053
CUGUGGUUAAUACAGAAUAUAACAAAAGCUGAGCACUAAACA--AGCAGUAAGUGCAGUAAAAUUCUGAAUGAAUUGGGUUCAAUCAAUUUGAAACGCCCACAUUGUUAUUGGCACAAAU
.((((.((((((((((((....((.....)).(((((..((.--....)).)))))......))))))((((...(((((((((.....))))...)))))))))..))))))))))... ( -25.40)
>DroSec_CAF1 43588 112 + 1
CUGUGGUUAAUAUA-------ACCAAAGCUGAGCACUAAACACAA-CAAUAAGUGUAGUAAAAUUCUGAAUGAAUUGGGUUCAAUCAAUUUGAAACACCCACAUUGUUAUUGGCACAAAU
...((((((...))-------))))..(((.((((....((((..-......)))).((..(((((.....)))))((((((((.....))))...))))))..))))...)))...... ( -21.60)
>DroSim_CAF1 15620 114 + 1
CUGUGGUUAAUACAG------AACAUAGCUGAGCACUAAACACAAGCAAUAAGUGUAGUAAAAUUCUGAAUGAAUUGGGUUCAAUCAAUUUGAAACACCCACAUUGUUAUUGGCACAAAU
.((((.(((((((((------((....(((..(((((..............))))))))....)))))((((...(((((((((.....))))...)))))))))..))))))))))... ( -23.24)
>DroEre_CAF1 18643 94 + 1
CUGUGGUUAAUACAGAACUUUACUAG--------------------------GUGCAGUAAAAUUCGGAAUGAAUUGGGUUCAAUCAAUUCGAAACACCCACCUUAUUAUUGGCACAAAU
.((((.(((((...(((.((((((..--------------------------....)))))).)))..(((((..(((((....((.....))...)))))..))))))))))))))... ( -18.30)
>DroYak_CAF1 12045 120 + 1
CUGCGGUUACUACAGAACAUAACUAAGGCUGAGCACUAAAAACAAGCAAUGAGUGUAGUAAAAUUCAGAAUGAAUUGGGUUCAAUCAAUUUGAAACACCCAACUUAUUAUUGGCACAAAU
.(((..(((((((........(((...(((..............)))....))))))))))....((((((((.((((((((((.....))))...)))))).))))).))))))..... ( -23.84)
>consensus
CUGUGGUUAAUACAGAA__U_ACCAAAGCUGAGCACUAAACACAAGCAAUAAGUGUAGUAAAAUUCUGAAUGAAUUGGGUUCAAUCAAUUUGAAACACCCACAUUGUUAUUGGCACAAAU
(((((.....))))).....................................((((((((((((((.....)))))((((((((.....))))...))))......))))).)))).... (-17.26 = -17.30 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:34 2006