Locus 5673

Sequence ID X_DroMel_CAF1
Location 14,673,734 – 14,673,838
Length 104
Max. P 0.904861
window9212 window9213

overview

Window 2

Location 14,673,734 – 14,673,838
Length 104
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 89.47
Mean single sequence MFE -30.66
Consensus MFE -21.64
Energy contribution -22.70
Covariance contribution 1.06
Combinations/Pair 1.10
Mean z-score -2.32
Structure conservation index 0.71
SVM decision value 0.53
SVM RNA-class probability 0.770672
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14673734 104 + 22224390
CCAAUCAGAAUGCACGCACACACUAAGGGUUAAUUUUCUAGUGUGUAUGCGUGUGCGUGUCUGUG--UGUGCGGGUUAUUUUUGUUGUUUGGUAUUUAUACACACC
......(((((((((((((((((((..((.....))..))))))))....)))))))).)))(((--((((..(((.................)))..))))))). ( -31.33)
>DroSec_CAF1 6451 103 + 1
CCAAUCAGAAUGCACGCACACACUAAGGGUUAAUUUUCUAGUGUGUAUGCGUGUGCAUGGCUGUG--UGUGCGGUUUAUUUUUGUUGU-UGGUAUUUAUACAGACA
(((((((((((((((((((((((((..((.....))..))))))))....))))))))((((((.--...))))))....))))..))-))).............. ( -30.40)
>DroSim_CAF1 6378 105 + 1
CCAAUCAGAAUGCACGCACACACUAAGGGUUAAUUUUCUAGUGUGUAUGCGUGUGCAUGGCUGUGUGUGUGCGGUUUAUUUUUGUUGU-UGGUAUUUAUACACACA
.....(((.((((((((((((((((..((.....))..))))))))....))))))))..)))((((((((..(..((((........-.)))).)..)))))))) ( -33.60)
>DroEre_CAF1 7655 97 + 1
CCAAUCAGAAUGCACGCACACACUAAGGGUUAAUUUUCCAGUGUGUAUGCCUGUGUGU------G--UGUGCCUCGUAUUUUUGUUGU-UGGUAUUUAUGCACACC
((((((((((.((((((((((((...((((..((........))....))))))))))------)--))))).......)))))..))-))).............. ( -27.30)
>consensus
CCAAUCAGAAUGCACGCACACACUAAGGGUUAAUUUUCUAGUGUGUAUGCGUGUGCAUGGCUGUG__UGUGCGGUUUAUUUUUGUUGU_UGGUAUUUAUACACACA
(((..((((((((((((((((((((.(((......)))))))))))....)))))))).(((((......))))).....)))).....))).............. (-21.64 = -22.70 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,673,734 – 14,673,838
Length 104
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 89.47
Mean single sequence MFE -24.77
Consensus MFE -18.01
Energy contribution -18.82
Covariance contribution 0.81
Combinations/Pair 1.05
Mean z-score -2.88
Structure conservation index 0.73
SVM decision value 1.04
SVM RNA-class probability 0.904861
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14673734 104 - 22224390
GGUGUGUAUAAAUACCAAACAACAAAAAUAACCCGCACA--CACAGACACGCACACGCAUACACACUAGAAAAUUAACCCUUAGUGUGUGCGUGCAUUCUGAUUGG
(((((......))))).......................--..(((((((((((((((.........................)))))))))))...))))..... ( -26.71)
>DroSec_CAF1 6451 103 - 1
UGUCUGUAUAAAUACCA-ACAACAAAAAUAAACCGCACA--CACAGCCAUGCACACGCAUACACACUAGAAAAUUAACCCUUAGUGUGUGCGUGCAUUCUGAUUGG
(((..(((....)))..-)))..................--..(((..((((((..((((((((...((..........))..)))))))))))))).)))..... ( -21.30)
>DroSim_CAF1 6378 105 - 1
UGUGUGUAUAAAUACCA-ACAACAAAAAUAAACCGCACACACACAGCCAUGCACACGCAUACACACUAGAAAAUUAACCCUUAGUGUGUGCGUGCAUUCUGAUUGG
(((((((..........-................)))))))..(((..((((((..((((((((...((..........))..)))))))))))))).)))..... ( -26.07)
>DroEre_CAF1 7655 97 - 1
GGUGUGCAUAAAUACCA-ACAACAAAAAUACGAGGCACA--C------ACACACAGGCAUACACACUGGAAAAUUAACCCUUAGUGUGUGCGUGCAUUCUGAUUGG
(((((......))))).-.............(((((((.--(------((((((.(.....).....((........))....))))))).)))).)))....... ( -25.00)
>consensus
GGUGUGUAUAAAUACCA_ACAACAAAAAUAAACCGCACA__CACAGCCACGCACACGCAUACACACUAGAAAAUUAACCCUUAGUGUGUGCGUGCAUUCUGAUUGG
(((((......)))))..................((((............((....)).((((((((((...........)))))))))).))))........... (-18.01 = -18.82 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:44 2006