Locus 3566

Sequence ID 3L_DroMel_CAF1
Location 10,461,542 – 10,461,636
Length 94
Max. P 0.633035
window5560

overview

Window 0

Location 10,461,542 – 10,461,636
Length 94
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 87.41
Mean single sequence MFE -18.43
Consensus MFE -14.14
Energy contribution -13.98
Covariance contribution -0.16
Combinations/Pair 1.07
Mean z-score -1.62
Structure conservation index 0.77
SVM decision value 0.20
SVM RNA-class probability 0.633035
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10461542 94 - 23771897
GCUAGCUUCGAACGAAAAUUUUGCAAGAGGU-UUGCGGGG---GAAAAAAAAAUGAACGAGAAAAUGGCAGGAGAAGCCAAGGCAAAAUCCUGGCUAA
((.((((((...(((.....)))...)))))-).))....---.......................(.(((((...((....))....))))).)... ( -20.30)
>DroSec_CAF1 333242 96 - 1
GCUAGUCUCGAACGAAAAU-UUGCAAGAGGU-UUGCGGAAAAAGAAAAAAAAAUGAACGAGCAAAUGGCAGGAGAAGCCAAGGGAAAAUCCUGGCUAA
.....((((.........(-(((((((...)-))))))).....................((.....))..))))(((((.((......))))))).. ( -19.00)
>DroSim_CAF1 350185 95 - 1
GCUAGUCUCGAACGAAAAU-UUGCAAGAGGUUUUGCGGAAAAAGAAA--AAAAUGAACGAGCAAAUGGCAGGAGAAGCCAAGGCAAAAUCCUGGCUAA
(((..((((....))...(-(((((((....))))))))........--.....))...)))....(.(((((...((....))....))))).)... ( -21.00)
>DroEre_CAF1 346820 88 - 1
GCUAGUAUCGAACGAA-AU-UUGCAAGAGGU-UUGCGGAAA-------AAAAAUGAACUAGAAAAUGGCAGGCGAAGCCAAAGCAAAAUCCUGGCUAA
(((((..((....)).-.(-((((....(((-((.......-------......)))))......((((.......))))..)))))...)))))... ( -16.62)
>DroYak_CAF1 347602 87 - 1
GCUAGACUCGAACGAA-AU-UUGCAAGAGGU-UUGCGGAAA--------AAAAUGAAGUAGAAAAUGGUAGGAGAAGCCAAGGCAAAAUCCUGGCUAA
(((((..((....)).-.(-((((......(-((((.....--------........)))))...((((.......))))..)))))...)))))... ( -15.22)
>consensus
GCUAGUCUCGAACGAAAAU_UUGCAAGAGGU_UUGCGGAAA__GAAA_AAAAAUGAACGAGAAAAUGGCAGGAGAAGCCAAGGCAAAAUCCUGGCUAA
(((((...............((((((......))))))...........................((((.......))))..........)))))... (-14.14 = -13.98 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:07 2006