Locus 5534

Sequence ID 2R_DroMel_CAF1
Location 17,668,483 – 17,668,590
Length 107
Max. P 0.537414
window8882

overview

Window 2

Location 17,668,483 – 17,668,590
Length 107
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.55
Mean single sequence MFE -31.62
Consensus MFE -25.98
Energy contribution -26.22
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.82
SVM decision value 0.01
SVM RNA-class probability 0.537414
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17668483 107 - 20766785
CAUAGUUGUAAAAUUCCUGUAAACAAGCCGGACUGCCACAGCUGUGGCAUGC-------GGCAUGUGGCAACUGCAACUGGCAACACA------CACACUCCCUGGCCAACGCACACUGA
...(((((((....(((.((......)).))).((((((((((((.....))-------))).)))))))..)))))))(((......------...........)))............ ( -31.23)
>DroSec_CAF1 21899 107 - 1
CAUAGUUGUAAAAUUCCUGUAAACAAGCCGGACUGCCACAGCUGUGGCAUGC-------GGCAUGUGGCAACUGCAACUGGCAACACA------CACACUCCCUGGCCAACGCACACUGA
...(((((((....(((.((......)).))).((((((((((((.....))-------))).)))))))..)))))))(((......------...........)))............ ( -31.23)
>DroEre_CAF1 22321 113 - 1
CAUAGUUGUAAAAUUCCUGUAAACAAGCCGGACUGCCACAGCUGUGGCAUGC-------GGCAUGUGGCAACUGCAACUGACAACACACACACACACACUCCUUGGGCAACGCACACUGA
..((((((((....(((.((......)).))).((((((((((((.....))-------))).)))))))..)))))))).......................(((....).))...... ( -30.80)
>DroYak_CAF1 34061 116 - 1
CAUAGUUGUAAAAUUCCUGUAAACAAGCCGGACUGCCACAGCUGUGGCAUGCGGCAUGCGGCAUGUGGCAACUGCAACUGGCAACACAC----ACACACUCCUUGGCCAACGCACACUGA
...(((((((....(((.((......)).))).(((((((((((((((.....)).)))))).)))))))..)))))))(((.......----............)))............ ( -33.21)
>consensus
CAUAGUUGUAAAAUUCCUGUAAACAAGCCGGACUGCCACAGCUGUGGCAUGC_______GGCAUGUGGCAACUGCAACUGGCAACACA______CACACUCCCUGGCCAACGCACACUGA
..(((((((.....(((.((......)).))).((((((((.(((.((((((........)))))).))).)))....)))))............................))).)))). (-25.98 = -26.22 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:10 2006