Locus 4146

Sequence ID 2L_DroMel_CAF1
Location 11,945,931 – 11,946,023
Length 92
Max. P 0.507274
window6538

overview

Window 8

Location 11,945,931 – 11,946,023
Length 92
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 77.40
Mean single sequence MFE -38.77
Consensus MFE -24.75
Energy contribution -25.58
Covariance contribution 0.84
Combinations/Pair 1.19
Mean z-score -1.21
Structure conservation index 0.64
SVM decision value -0.05
SVM RNA-class probability 0.507274
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11945931 92 - 22407834
GACGGGCAGGCGGGUGGCGAGCAAAGUGGGUGGAUGGGAGACCACGGUGGCCUGAAUG------------------------CUGGGCAGGCUUUGGGCCAGGAGUAGGGUCUGCU
....(((((((...((.(.((((...(((((.(.(((....)))...).)))))..))------------------------)).).))(((.....))).........))))))) ( -36.40)
>DroPse_CAF1 141043 113 - 1
GGAUGGCAGGCGGGA---GAGCAGUGUGGGUGGAUGCGAUACGACGGUGGCCUGGACGCUCUGGCCGAGCAGUUGGCUGGCGCUGGGCAGGCUCUGGGCCAGGAGCAGGGUCUGUU
....(((((((....---.....((.(((((.(.((((...)).)).).))))).))(((((((((.((.(((..(((.......)))..))))).))))).))))...))))))) ( -43.00)
>DroSim_CAF1 131680 92 - 1
GCCGGGCAGGCGGGAGGCGAGCAAAGUGGGUGGAUGGGAGACCACGGUGGCCUGAAUG------------------------CUGGGCAGGCUUUGGGCUAGGAGUAGGGUCUGCU
(((.....)))......(.((((...(((((.(.(((....)))...).)))))..))------------------------)).)((((((((((..(...)..)))))))))). ( -34.00)
>DroEre_CAF1 139692 92 - 1
GGCGGGCAGACGGGAGGCGAGCAAAGUGGGCGGAUGGGAGACCACGGUGGCCUGAAUG------------------------CUGGGCAGGCUUUGGGUCAGCAGCAGGGUCUGCU
..(.((((..((((..((..((.......))...(((....)))..))..))))..))------------------------)).)((((((((((.(....)..)))))))))). ( -35.70)
>DroYak_CAF1 135389 92 - 1
GGCGGGCAGACGGGAGGCGAGCAGAGUGGGCGGAUGGGAGACCACGGUGGCCUGAAUG------------------------CUGGGCAGGCUUUGGGCCAGGAGCAGGGUCUGCU
....(((((((....(.(.((((...(((((.(.(((....)))...).)))))..))------------------------)).).).(((.....))).........))))))) ( -38.90)
>DroPer_CAF1 147326 113 - 1
GGAUGGCAGGCGGGA---GAGCAGUGUGGGUGGAUGCGAUACGACGGUGGCUUGGACGCUCUGGCCGAGCAGUUGGCUGGCGCUGGGCAGGCUCUGGGCCAGGAGCAGGGUCUGCU
....((((((((...---(((((.(((.(.((....))...).))).).))))...)(((((((((.((.(((..(((.......)))..))))).))))).))))...))))))) ( -44.60)
>consensus
GGCGGGCAGGCGGGAGGCGAGCAAAGUGGGUGGAUGGGAGACCACGGUGGCCUGAAUG________________________CUGGGCAGGCUUUGGGCCAGGAGCAGGGUCUGCU
....(((((((..............((((............))))(((((((((..(((.((((((((....)))))))).)).)..))))))....))).........))))))) (-24.75 = -25.58 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:40 2006