Locus 8585

Sequence ID 3R_DroMel_CAF1
Location 22,960,439 – 22,960,543
Length 104
Max. P 0.611582
window13790

overview

Window 0

Location 22,960,439 – 22,960,543
Length 104
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.69
Mean single sequence MFE -28.10
Consensus MFE -12.40
Energy contribution -12.32
Covariance contribution -0.08
Combinations/Pair 1.17
Mean z-score -2.06
Structure conservation index 0.44
SVM decision value 0.16
SVM RNA-class probability 0.611582
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22960439 104 - 27905053
UAUUAAAUA----CCAGU------GGCAGUUGUACACACAGC-AAUUGGAAAAUCCCAGCCAGCUGCGUUGUGGGGACAGGAGAAGAAGCCAUUGAAAAAUC-----GUGUGGGGGGGGG
.........----(((((------....(((((....)))))-.)))))....((((..((((((.(.((.((....)).))...).))).(((....))).-----...)))..)))). ( -24.10)
>DroSec_CAF1 12962 93 - 1
UAUUAAAUA----CCAGU------GGCAGUGGUGCACACAGC-CAAUGGAAAAUCCCAGCUAGCUGGGA--UGGCAGUAGUAGAAGAAGCCAUUGAAAAAUC-----G-GUG--------
(((((....----(((.(------(((.(((.....))).))-)).)))...(((((((....))))))--).....)))))......((((((....))).-----)-)).-------- ( -30.40)
>DroSim_CAF1 13583 91 - 1
UAU-AAAUA-----CAGU------GGCAGUGGUGCACACAGC-AAAUGGAAAAUCCCAGCUAGCUGGGA--UGGCAAUAGGAGAAGAAGCCAUUGAAAAAUC-----G-GUG--------
...-.....-----((((------(((.(((.....))).((-.........(((((((....))))))--).)).............))))))).......-----.-...-------- ( -27.20)
>DroEre_CAF1 13169 96 - 1
UAUUAAAUAUGUACCAGU-----UGGCAGUGG--CGCACAGC-AAAUGGAAAAUCCCAGCCAGUUGCGA--UGGGAGGAGGAGAAGAAGCCAUUGAAAAAUC-----G-GUG--------
...........((((.((-----(..((((((--(((...))-..........(((((((.....))..--)))))............)))))))...))).-----)-)))-------- ( -23.50)
>DroYak_CAF1 13408 103 - 1
UAUUAAAUA----CCAGUGACAGUGGCAGUGG--CUCACAGCCACAUGGAAAAUCCCAGCCAGCUGCGA--UGGCAGGAGGAGAAGAAGCCAUUGAAAGAGCGGCGCG-GUG--------
.......((----((.(((.(..((((.((((--(.....))))).(((......)))))))(((.(((--((((.............)))))))....)))).))))-)))-------- ( -35.32)
>consensus
UAUUAAAUA____CCAGU______GGCAGUGGU_CACACAGC_AAAUGGAAAAUCCCAGCCAGCUGCGA__UGGCAGGAGGAGAAGAAGCCAUUGAAAAAUC_____G_GUG________
........................(((.((.....)).((((....(((......)))....))))......................)))............................. (-12.40 = -12.32 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:41 2006