Locus 9390

Sequence ID 3R_DroMel_CAF1
Location 24,911,719 – 24,911,832
Length 113
Max. P 0.972919
window15035

overview

Window 5

Location 24,911,719 – 24,911,832
Length 113
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 81.13
Mean single sequence MFE -26.76
Consensus MFE -11.72
Energy contribution -13.36
Covariance contribution 1.64
Combinations/Pair 1.05
Mean z-score -3.07
Structure conservation index 0.44
SVM decision value 1.70
SVM RNA-class probability 0.972919
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24911719 113 - 27905053
UAACGAGGUAAU-UUGACAGC-AAAAUAGCUGCGCGAUGCAU-AUUUAAUACACAUAUCAUUGUGCAGCUUAGCUUGUCUAUGUCACGUAACAAAAA-UCUCUGUUAGAUUUCAAUU--
(((((((((...-..((((((-.....((((((((((((.((-((.........))))))))))))))))..)).))))..(((......)))...)-)))).))))..........-- ( -30.90)
>DroSec_CAF1 23367 108 - 1
UAACGAGGUAAU-UCGACAGC-AAAAUAGCUGCGCAAUGCAUUAUUUAAUACACAUAUAAUUGUGCAGC-----UUGUUUAUGUCAGUUAAC-UAAA-UCUCUGUUA--UUUCAACUAU
(((((((((...-..((((..-.(((((((((((((((.....................))))))))))-----.))))).))))((....)-)..)-)))).))))--.......... ( -26.60)
>DroSim_CAF1 23033 102 - 1
UAACGAGGUAAU-UCGACAGC-AAAAUAGCUGCGCAA-------UUUAAUACUCAUAUAAUUGUGCAGC-----UUGUUUAUGUCAGCUAACAUAAA-UCUCUGUUA--UUUCAACUAU
....((((((((-..((....-.....((((((((((-------((............)))))))))))-----).((((((((......)))))))-).)).))))--))))...... ( -26.30)
>DroEre_CAF1 23437 108 - 1
UAACGAGGUAAU-UUGCCAGCUAAAAUGGCUGAGCAAUGCAUCUUUUAAUAAAUAUUUAAUUGUGCAGG-----UUGUUUAUGUCAGCUAACAUAAACUCUCU---A--AUUCAACUAU
....((((....-(((((((((.....))))).))))(((((...((((.......))))..)))))..-----..((((((((......)))))))))))).---.--.......... ( -25.10)
>DroYak_CAF1 23733 108 - 1
UAACGAGGUAAUUUUGCCAGCUAAAAUGGCUGGGCAAUGAAUGCUUUAAUAAAUAUUUAAUUGUGCACG-----UUGCUUAUGUCCGCUAACAUAAA-UCUCU---A--UUUCAACUAU
....(((((.......((((((.....))))))((((((..(((.((((.......))))....)))))-----))))((((((......)))))))-)))).---.--.......... ( -24.90)
>consensus
UAACGAGGUAAU_UUGACAGC_AAAAUAGCUGCGCAAUGCAU_AUUUAAUACACAUAUAAUUGUGCAGC_____UUGUUUAUGUCAGCUAACAUAAA_UCUCUGUUA__UUUCAACUAU
....((((....................((((((((((.....................)))))))))).........((((((......))))))..))))................. (-11.72 = -13.36 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:33:27 2006