Locus 10304

Sequence ID 3R_DroMel_CAF1
Location 27,626,772 – 27,626,886
Length 114
Max. P 0.523469
window16405

overview

Window 5

Location 27,626,772 – 27,626,886
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 74.42
Mean single sequence MFE -38.77
Consensus MFE -16.87
Energy contribution -16.40
Covariance contribution -0.47
Combinations/Pair 1.37
Mean z-score -1.84
Structure conservation index 0.44
SVM decision value -0.02
SVM RNA-class probability 0.523469
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27626772 114 + 27905053
CCUCCAUUGUAAAACAGCUUGAGGGCGGCCUUGAACUGCAUCUAAGGACGUCCGAAGACGGAGGCAAUGACCUUGUUCAGUUUUUGAU---GCAAGAAAAGAGCUCCAUCAUAAUCA
(((((.(((.....)))(((..(((((.((((((......)).)))).))))).)))..)))))..((((....((((..((((((..---.))))))..))))....))))..... ( -30.70)
>DroPse_CAF1 7141 117 + 1
UGCCCGUUCUCAGCCAGUUGAAGGGCGGCGUGGAGCUGCACUUGCGAAGUUCGAAGGAUGGAGAUCACGAUUUUGUGCAGUUUCUCCUGAGGCAGGGCAAAUACUCGAUGAGUAUCA
(((((..((((((((........)))((...((((((((((.........((....))..(((((....))))))))))))))).)))))))..))))).((((((...)))))).. ( -41.20)
>DroSec_CAF1 6836 117 + 1
CCUCCAUUGUGGAGCAGCUUGAGGGCGGCCUUGAACUGCAUCUAAGGAGUUCGGAAGACGGAGGCAAUGAUCUUGUUCAGUUUUUGAUGGUGCAAGAAAAGAGCUCCAUCAAAAUUA
(((((....((((((((.(..(((....)))..).)))).))))....((.(....))))))))...(((......)))..(((((((((.((.........)).)))))))))... ( -39.70)
>DroSim_CAF1 6838 117 + 1
CCUCCAUUGUGGAGCAGUUUGAGGGCGGCCUUGAACUGCAUCUAAGGAGUUCGGAAGACGGAGGCAAUGAUCUUGUUCAGUUUUUGAUGGUGCAAGAAAAGAGCUCCAUCAAAAUUA
(((((....((((((((((..(((....)))..)))))).))))....((.(....))))))))...(((......)))..(((((((((.((.........)).)))))))))... ( -43.90)
>DroEre_CAF1 6794 117 + 1
GCUCCAUUGUACAACAGCUCGAGGGCGGCCUGGAACUGCAUCUAAGGAGCCCCGAGGACGGAGACCUCGAUCUUGUCCAGUUUUUGAUGGUGCAAGAAAAGAGCUCCAUAAAAAUAA
.................((((.((((..((((((......))).))).))))))))...((((..(((..(((((((((........))).))))))...))))))).......... ( -37.70)
>DroPer_CAF1 7157 117 + 1
UGCCCGUUCUCAGCCAGUUGAAGGGCGGCGUGGAGCUGCACUUGCGAAGUUCGAAGGAUGGAGAUCACGAUUUUGUGCGGUUUCUUCUGAGGCAGGGCAAAUACUCGAUGAGUAUCA
(((((..((((((((.((......)))))..((((((((((.........((....))..(((((....)))))))))))))))...)))))..))))).((((((...)))))).. ( -39.40)
>consensus
CCUCCAUUGUAAAACAGCUUGAGGGCGGCCUGGAACUGCAUCUAAGGAGUUCGGAAGACGGAGACAACGAUCUUGUUCAGUUUUUGAUGGUGCAAGAAAAGAGCUCCAUCAAAAUCA
(((((............(((.(((((((.......)))).))).)))...((....)).)))))..........((((..((((((......))))))..))))............. (-16.87 = -16.40 +  -0.47)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:53:40 2006