Locus 3410

Sequence ID 3R_DroMel_CAF1
Location 9,241,353 – 9,241,446
Length 93
Max. P 0.728306
window5473

overview

Window 3

Location 9,241,353 – 9,241,446
Length 93
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 82.75
Mean single sequence MFE -18.97
Consensus MFE -12.32
Energy contribution -13.92
Covariance contribution 1.60
Combinations/Pair 1.05
Mean z-score -2.43
Structure conservation index 0.65
SVM decision value 0.42
SVM RNA-class probability 0.728306
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9241353 93 - 27905053
UGUUUACCUUAAAUUCAGCCGCAUCAUCAUGCAGUACAAUGGACUC--UCCAUUGACAAAAACAGGCACUGAUAUGCUGAUAAAAAGAC-ACAAAA
.......(((....(((((.((((....)))).((.((((((....--.))))))))..................)))))....)))..-...... ( -19.40)
>DroSec_CAF1 12282 93 - 1
UGUUUACCUUAAAUUCCGCCGCAUCACCAUGCGGUACAAUGGACUC--UCCAUUGACAAAAACAGCCACUGAUAUGCUGAUAAAAAUAC-ACAAAA
.................(((((((....))))))).((((((....--.)))))).......((((.........))))..........-...... ( -21.00)
>DroSim_CAF1 12108 93 - 1
UGUUUACCUUAAAUUCCGCCGCAUCACCAUGCGGUACAAUGGACUC--UCCAUUGACAAAAACAGCCAAUGAUAUGCUGAUAAAAAUAC-ACAAAA
.................(((((((....))))))).((((((....--.)))))).......((((.........))))..........-...... ( -21.00)
>DroEre_CAF1 12917 92 - 1
UGUUUACCUUAAAUUCCGACGCAUCACCAUGCGGUACAAUGGACUC--UCCAUUCACAAAAACAGCCGCUGAUAUGCUGAUACAAACGC--CGAAA
.((((..............(((((....)))))(((.(((((....--.)))))........((((.........)))).)))))))..--..... ( -15.20)
>DroYak_CAF1 12257 92 - 1
UGUUUACCUUAAAUUCCGCCGCAUCACCAUGCGGUACAAUGGACUC--UCCAUUGACAAAAACAGGCGCUGAUAUGCUGAUACAAAUGC--CGAAA
(((((............(((((((....))))))).((((((....--.))))))....)))))((((.(..(((....)))..).)))--).... ( -24.00)
>DroAna_CAF1 12298 78 - 1
CAUAUACCUUAAAUUCCUG----------AGCAGUACAAUGGACUCUCUCCAUUGACAAAAACGGUCGCAGCUAU--------AAAGGCAACAAAA
...............(((.----------(((.((.(((((((.....)))))))))......(....).)))..--------..)))........ ( -13.20)
>consensus
UGUUUACCUUAAAUUCCGCCGCAUCACCAUGCGGUACAAUGGACUC__UCCAUUGACAAAAACAGCCACUGAUAUGCUGAUAAAAAUAC_ACAAAA
(((((............(((((((....))))))).(((((((.....)))))))....)))))................................ (-12.32 = -13.92 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:18 2006