Locus 1935

Sequence ID 2L_DroMel_CAF1
Location 5,238,687 – 5,238,802
Length 115
Max. P 0.962279
window3127

overview

Window 7

Location 5,238,687 – 5,238,802
Length 115
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 85.40
Mean single sequence MFE -31.34
Consensus MFE -28.06
Energy contribution -28.10
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -2.00
Structure conservation index 0.90
SVM decision value 1.54
SVM RNA-class probability 0.962279
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5238687 115 + 22407834
GGUGUGAUUUCUCAAGUGUAGGAGUCAUGCGGUGCACAGCCAGACGCUGAGAGGUUGCACCAAAGGCAGAGAAAUCGAAA-AGAAGGCGAAGCGAACCAAGAGGGACAGAGAAGAA
((((..((((((((.((((..(.((..(((...)))..)))..))))))))))))..)))).......((....))....-............(..((....))..)......... ( -32.30)
>DroSec_CAF1 15843 110 + 1
GGUGUGAUUUCUCAAGUGUAGGAGUCAUGCGGUUCACAGCCAGACGCUGAGAAGUUGCACCAGAGGCAGAGA-AUCGAAA-AGAAGGCGAAGCGAACCAGGAGGUACAGAGA----
((((..((((((((.((((....(.....)(((.....)))..))))))))))))..))))....((...(.-.((....-.))...)...))(.(((....))).).....---- ( -30.40)
>DroSim_CAF1 16813 110 + 1
GGUGUGAUUUCUCAAGUGUAGGAGUCAUGCGGUGCACAGCCAGACGCUGAGAGGUUGCACCAGAGGCAGAGA-AUCGAAA-CGAAGGCGAAGCGAACCAGGAGGGACAGAGA----
((((..((((((((.((((..(.((..(((...)))..)))..))))))))))))..))))...........-.(((...-((....))...))).((....))........---- ( -32.40)
>DroEre_CAF1 8597 91 + 1
GGUGUGAUUUCUCAAGUGUAGGAGUCAUGCGGUGCACAGCCAGACGCUGAGAGGUUGCACCAGAGAAAGAGA-AUCG------------------------AGGGACAGAGAAGGA
((((..((((((((.((((..(.((..(((...)))..)))..))))))))))))..))))...........-....------------------------............... ( -28.80)
>DroYak_CAF1 18440 115 + 1
GGUGUGAUUUCUCAAGUGUAGGAGUCAUGCGGUGCACAGCCAGACGCUGAGAGGUUGCACCAGAGACAGAGA-AUCGAAAGAGAGGGCAAAGGGAACCAGGAGGGACAGAGAAGGA
((((..((((((((.((((..(.((..(((...)))..)))..))))))))))))..))))...........-.((....))...........(..((....))..)......... ( -32.80)
>consensus
GGUGUGAUUUCUCAAGUGUAGGAGUCAUGCGGUGCACAGCCAGACGCUGAGAGGUUGCACCAGAGGCAGAGA_AUCGAAA_AGAAGGCGAAGCGAACCAGGAGGGACAGAGAAG_A
((((..((((((((.((((..(.((..(((...)))..)))..))))))))))))..))))....................................................... (-28.06 = -28.10 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:18 2006