Locus 4900

Sequence ID 2R_DroMel_CAF1
Location 16,014,132 – 16,014,244
Length 112
Max. P 0.987669
window7853

overview

Window 3

Location 16,014,132 – 16,014,244
Length 112
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 76.36
Mean single sequence MFE -22.72
Consensus MFE -16.34
Energy contribution -17.14
Covariance contribution 0.80
Combinations/Pair 1.10
Mean z-score -2.18
Structure conservation index 0.72
SVM decision value 2.09
SVM RNA-class probability 0.987669
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16014132 112 - 20766785
ACCCACACAGCCACCCGCAAUUCAAGCCCCCACCACACGGCCACCCACACACUCUCAAGUGAGUGCAAGUGCCGGCUCAAGUUGCACUCUUACAUGCAGCAAACGGAAAUCA
..((....((((....((.......))...........(((.((.(((.((((....)))).)))...)))))))))...((((((........))))))....))...... ( -26.80)
>DroGri_CAF1 171560 84 - 1
------------ACACACA--------CACAUACAUACAACUUU--ACACACACU----UGAGUGCGAGUG-CGCCUCAAGUUGCACUUUUACAUACAGCA-ACGGAAAUCA
------------.......--------.................--........(----((((.(((....-))))))))(((((.............)))-))........ ( -14.12)
>DroSec_CAF1 69303 112 - 1
ACACACACAGCCACCCGCAGUUCAAGCCACCUCCACACGGCCACCCACACACUCUCAAGUGAGUGCAAGUGCCGGCUCAAGUUGCACUCUUACAUGCAGCAAACGGAAAUCA
.........((.....)).............(((...((((.((.(((.((((....)))).)))...))))))......((((((........))))))....)))..... ( -24.80)
>DroSim_CAF1 70271 112 - 1
ACACACACAGCCACCCGCAGUUCAAGCCACCACCACACGGCCACCCACACACUCUCAAGUGAGUGCAAGUGCCGGCUCAAGUUGCACUCUUACAUGCAGCAAACGGAAAUCA
..............(((.......((((..(((.....((....))...(((((......)))))...)))..))))...((((((........))))))...)))...... ( -25.10)
>DroEre_CAF1 75696 87 - 1
--ACGC-----------------------UCACCACACAGCCACCCACACACUCUCAAGUGAGUGCAAGUGCCGGCUCAAGUUGCACUCUUACAUGCAGCAAACGGAAAUCA
--....-----------------------...((....((((...(((.(((((......)))))...)))..))))...((((((........))))))....))...... ( -22.80)
>consensus
ACACACACAGCCACCCGCA_UUCAAGCCACCACCACACGGCCACCCACACACUCUCAAGUGAGUGCAAGUGCCGGCUCAAGUUGCACUCUUACAUGCAGCAAACGGAAAUCA
................................((....((((...(((.(((((......)))))...)))..))))...((((((........))))))....))...... (-16.34 = -17.14 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:45 2006