Locus 5363

Sequence ID 2L_DroMel_CAF1
Location 15,224,427 – 15,224,558
Length 131
Max. P 0.658384
window8514 window8515

overview

Window 4

Location 15,224,427 – 15,224,524
Length 97
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 70.89
Mean single sequence MFE -25.38
Consensus MFE -7.86
Energy contribution -7.95
Covariance contribution 0.09
Combinations/Pair 1.15
Mean z-score -1.95
Structure conservation index 0.31
SVM decision value -0.02
SVM RNA-class probability 0.523287
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15224427 97 - 22407834
------GUAUAAUAUAUAACGCUCCUAU-----GAUGGCGUUCACUUCAUCAUAAGCUGGUGACAGUGU--GU--UGCAAGCUGGUGAUAAAUAUCACAC-UCAUAAUAAUCU
------..........((((((...(((-----(((((.(....).)))))))).((((....))))))--))--)).......(((((....)))))..-............ ( -23.50)
>DroSec_CAF1 168651 77 - 1
-------------------------U--------AUGGCGUUCACUUCAUCAUAAGCUGGUGACAGUGU--GUGGUGCAAGCUGGUGAUAAAUAUCACAC-UCAUAAUAAUCU
-------------------------(--------((((.((.((((((((((((.((((....)))).)--)))))).))).))(((((....)))))))-)))))....... ( -24.30)
>DroSim_CAF1 171968 96 - 1
------GUGUAAUGUAUAACGCUCGU--------AUGGCGUUCACUUCAUCAUAAGCUGGUGACAUUGU--GUGGUGCAAGCUGGUGAUAAAUAUCACAC-UCAUAAUAAUCU
------((((.((((...(((((...--------..)))))(((((.(((((((...((....))...)--))))))......)))))...)))).))))-............ ( -23.30)
>DroEre_CAF1 174096 85 - 1
--------------UAUAACGCUCGU--------AUGGCGU-CACUUCAUCAUAAGCUGGUGACAGUGU--GU--UGCAAGCUGGUGAUAAAUAUUACAC-UCGUGAUAAUCU
--------------....(((((...--------..)))))-......(((((.((((.(..((.....--))--..).)))).)))))...((((((..-..)))))).... ( -22.40)
>DroYak_CAF1 184918 100 - 1
AUGUAUGUAUAAUAUAUAACGCUUAU--------AUGGCGUUCACUUCAUCAUGAGCUGGUGACAGUGU--GG--UGCAAGCUGGUGAUAAAUAUCACAC-UCAUGUUAAUCU
((((((.....))))))((((((...--------..))))))(((((((((((..((((....))))))--))--)).))).))(((((....)))))..-............ ( -27.00)
>DroAna_CAF1 180287 104 - 1
------UGAUACUACACACC-CACCCAUCCCGGGGUG-GGUGCACUUCAUCAUGAACAGGUGGCCCUGCUGGCGGUGGAUGAUGUUGAUAAAUUCC-CAUAAAGUAAUACCCU
------...((((...((((-(((((......)))))-))))..(..((((((..((.(.((((...)))).).))..))))))..).........-.....))))....... ( -31.80)
>consensus
______GUAUAAUAUAUAACGCUCCU________AUGGCGUUCACUUCAUCAUAAGCUGGUGACAGUGU__GU__UGCAAGCUGGUGAUAAAUAUCACAC_UCAUAAUAAUCU
................................................(((((.(((((....)..(((.......))))))).)))))........................ ( -7.86 =  -7.95 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,224,464 – 15,224,558
Length 94
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 71.26
Mean single sequence MFE -27.14
Consensus MFE -12.46
Energy contribution -13.82
Covariance contribution 1.36
Combinations/Pair 1.23
Mean z-score -1.74
Structure conservation index 0.46
SVM decision value 0.26
SVM RNA-class probability 0.658384
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15224464 94 - 22407834
GCUGGAGUGGUUUAACAUAUUCCGCUUUACAUGU----------GUAUAAUAUAUAACGCUCCUAU-----GAUGGCGUUCACUUCAUCAUAAGCUGGUGACAGUGU--GU--
..((((((((..((...))..))))))))..(((----------(((...))))))((((...(((-----(((((.(....).)))))))).((((....))))))--))-- ( -24.50)
>DroSim_CAF1 172005 93 - 1
GCUGGAGUGGUUUAACAUAUUCCGCUUUACAUGU----------GUGUAAUGUAUAACGCUCGU--------AUGGCGUUCACUUCAUCAUAAGCUGGUGACAUUGU--GUGG
..((((((((............((((.(((..((----------((..........))))..))--------).)))).)))))))).((((...((....))...)--))). ( -22.62)
>DroEre_CAF1 174133 83 - 1
GCUGGAGUGGUUUACCAUACUCCGCUUUACAUAUG-----------------UAUAACGCUCGU--------AUGGCGU-CACUUCAUCAUAAGCUGGUGACAGUGU--GU--
(.((((((((....((((((..((...(((....)-----------------))...))...))--------))))..)-))))))).)....((((....))))..--..-- ( -24.50)
>DroYak_CAF1 184955 101 - 1
GCUGGAGUGGUUUAACAUAUUCCGCUUUACAUAUAUAUAUGUAUGUAUAAUAUAUAACGCUUAU--------AUGGCGUUCACUUCAUCAUGAGCUGGUGACAGUGU--GG--
..(((((((.......(((((..((..((((((....)))))).))..)))))..((((((...--------..))))))))))))).(((..((((....))))))--).-- ( -27.50)
>DroAna_CAF1 180324 101 - 1
CAUGAAGCUGUUUAACAUAAUCUGCUUUACGUGA----------UGAUACUACACACC-CACCCAUCCCGGGGUG-GGUGCACUUCAUCAUGAACAGGUGGCCCUGCUGGCGG
..((((((.(((......)))..))))))(((((----------(((.......((((-(((((......)))))-))))....))))))))..((((....))))....... ( -36.60)
>consensus
GCUGGAGUGGUUUAACAUAUUCCGCUUUACAUGU__________GUAUAAUAUAUAACGCUCCU________AUGGCGUUCACUUCAUCAUAAGCUGGUGACAGUGU__GU__
..((((((((...........))))))))..........................(((((.(((........))))))))((((((((((.....)))))).))))....... (-12.46 = -13.82 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:18 2006