Locus 7548

Sequence ID 3R_DroMel_CAF1
Location 20,223,207 – 20,223,313
Length 106
Max. P 0.916598
window12181

overview

Window 1

Location 20,223,207 – 20,223,313
Length 106
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -27.60
Consensus MFE -21.90
Energy contribution -21.02
Covariance contribution -0.88
Combinations/Pair 1.22
Mean z-score -1.97
Structure conservation index 0.79
SVM decision value 1.11
SVM RNA-class probability 0.916598
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20223207 106 + 27905053
UGCGUGUGUUUGUGUGUGUGCAGG---ACGAAGGACCGGCACACCCACACGCCCACACACCCACACAGAGUCAAACCUAUUUGUUUAUAACCUAAAAACACAACCAAUG
...(((((..(((((((((((.((---.(....).)).))))))..)))))..)))))......(((((..........)))))......................... ( -27.90)
>DroSec_CAF1 34506 106 + 1
UGCGUGUGUUUGUGUGUGUGCAGG---ACGAAGGACCGGCACACCCACACGCCCACACACCCACACAGAGCCAAACCUAUUUGUUUAUAACCUAAAAACACAACCAAUG
...(((((..(((((((((((.((---.(....).)).))))))..)))))..)))))......(((((..........)))))......................... ( -27.90)
>DroSim_CAF1 37782 106 + 1
UGCGUGUGUUUGUGUGUGUGCAGG---ACGAAGGACCGGCACACCCACACGCCCACACACCCACACAGAGCCAAACCUAUUUGUUUAUAACCUAAAAACACAACCAAUG
...(((((..(((((((((((.((---.(....).)).))))))..)))))..)))))......(((((..........)))))......................... ( -27.90)
>DroEre_CAF1 34620 106 + 1
UGCGUGUGUUUGUGUGUGUGCAGG---ACGAAGGACCGGCACACCCACACGCCCACAGACCCACACAGAGCCAAACCUAUUUGUUUAUAACCUAAAAACACAACCAAUG
((..((((((((((.((((((.((---.(....).)).)))))).)))................(((((..........)))))...........)))))))..))... ( -25.90)
>DroAna_CAF1 35562 109 + 1
CGCGUGUGCCUGCAUGUGUGCGUGUGUGUGUGAAACCAACACACUUGCACGCCUACACACCCACACAUAGCCAAACCUAUUUGUUUAUAACCUAAAAACACAACCAAUG
...(((((..((..((((.((((((((((((.......))))))..)))))).))))))..)))))((((.((((....)))).))))..................... ( -28.40)
>consensus
UGCGUGUGUUUGUGUGUGUGCAGG___ACGAAGGACCGGCACACCCACACGCCCACACACCCACACAGAGCCAAACCUAUUUGUUUAUAACCUAAAAACACAACCAAUG
...(((.((.((((.((((((.((....(....).)).)))))).)))).)).))).........................(((((.........)))))......... (-21.90 = -21.02 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:33 2006