Locus 6171

Sequence ID 3R_DroMel_CAF1
Location 16,163,597 – 16,163,702
Length 105
Max. P 0.624978
window10060

overview

Window 0

Location 16,163,597 – 16,163,702
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.48
Mean single sequence MFE -37.78
Consensus MFE -22.80
Energy contribution -24.80
Covariance contribution 2.00
Combinations/Pair 1.16
Mean z-score -1.65
Structure conservation index 0.60
SVM decision value 0.19
SVM RNA-class probability 0.624978
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16163597 105 + 27905053
UUUUCGGGGGGAUCCCAGCAGGUUGUCGAGGCAAUAAAAUCGCCGCCUGCUGUGCACUCAAAUGACCAGUAGCCGGACCAGAAGC------AG---------CCUGAUUCCCCUGGCUCU
...(((((((((((.....((((((((((..........)))(((.((((((..((......))..)))))).))).......))------))---------)))))))))))))).... ( -38.50)
>DroSec_CAF1 33176 119 + 1
UUUUCGGG-GGAUCCCAGCAGGUUGUCGAGGCAAUAAAAUCGCCGCCAGCUGUGCACUCAAAUGACCAGGAGCCGGACCAGAAGCAGAAGCAGAAGCACAGCACUGAUUCCCCUGGCUCU
...(((((-(((...(((..(((.(.(((..........)))).))).(((((((..........((.(....))).......((....))....))))))).)))..)))))))).... ( -37.80)
>DroSim_CAF1 35321 114 + 1
UUUUCGGGGGGAUCCCAGCAGGUUGUCGAGGCAAUAAAAUCGCCGCCUGCUGUGCACUCAAAUGACCAGGAGCCGGACCAGAAGC------AGAAGCACAGCCCUGAUUCCCCUGGCUCU
...(((((((((((.((((((((.(.(((..........)))).))))))))...............(((.(((......)..((------....))...)))))))))))))))).... ( -38.60)
>DroEre_CAF1 33095 94 + 1
UUUU-GGGGGGAUCCCAGCAGGUUGGCGAGGCAAUAAAAUCGCCGCCUGCUGUGCACUCAAAUGACCAGAAGCAGGG-------------------------AUUGGCUCCUCUAGCUCU
....-((((((((((((((((((.(((((..........)))))))))))).(((..((.........)).))))))-------------------------))...))))))....... ( -35.60)
>DroAna_CAF1 30705 95 + 1
UUUUAAGGGUGUUCCCAGCAGGUUGUCGAGGCAAUAAAAUCGCCGCCUGCUGGGCACUCAAAUGACCAAA-GCCU-----------------------UCUCCCUCAUCCGGGUGGCA-U
......(((((..((((((((((.(.(((..........)))).)))))))))))))))...........-(((.-----------------------...(((......))).))).-. ( -38.40)
>consensus
UUUUCGGGGGGAUCCCAGCAGGUUGUCGAGGCAAUAAAAUCGCCGCCUGCUGUGCACUCAAAUGACCAGAAGCCGGACCAGAAGC______AG________CCCUGAUUCCCCUGGCUCU
...(((((((((((.((((((((.(.(((..........)))).)))))))).............((.......)).............................))))))))))).... (-22.80 = -24.80 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:30 2006