Locus 1016

Sequence ID 2R_DroMel_CAF1
Location 4,217,583 – 4,217,693
Length 110
Max. P 0.724541
window1803

overview

Window 3

Location 4,217,583 – 4,217,693
Length 110
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.05
Mean single sequence MFE -29.28
Consensus MFE -25.53
Energy contribution -26.10
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.58
Structure conservation index 0.87
SVM decision value 0.41
SVM RNA-class probability 0.724541
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4217583 110 + 20766785
CAAGCCAAU---------AGCACAGAA-AAAGGACUUCUCCUUCCGUUUUGCCGUUUUUGCAUUCGAUUCGGGACUGCGAGGCUAUGUAAGAACGUGAAGGAGAAUGCAAAACAAUUUGG
...((....---------.)).((((.-....(..(((((((((((((((..((((((((((.((.......)).)))))))..)))..)))))).)))))))))..).......)))). ( -29.00)
>DroSec_CAF1 29100 110 + 1
CAAGCCAAU---------AGCACAGAA-AAAGGACUUCUCCUUCCGUUUUGCCGUUUUUGCAUUCGAUUCGGGACUGCGAGUCUAUGUAAAAACGUGAAGGAGAAUGCAAAACAAUUUGG
...((....---------.)).((((.-....(..(((((((((.(.....)(((((((((((..((((((......)))))).))))))))))).)))))))))..).......)))). ( -30.70)
>DroEre_CAF1 30715 120 + 1
CAAGCCAAUAGCACCAAUAGCACAGAAAAAAGGACUUCUCCUUCCAUCUUGCAGUUUUUGCAUUCGAUUCGGGACUGCAAGUCUAUGUAAAAACGUGAAGGAGAAUGCAAAACAAUUUGG
...((.....)).((((..(((.(((...(((((....)))))...)))))).(((((.((((((..(((.((((.....))))((((....)))))))...)))))))))))...)))) ( -30.40)
>DroYak_CAF1 31735 111 + 1
CAAGGCAAU---------AGCACAGAAAAAAGGACUUCUCCUUCCAUUUUGCAGUUUUUGCAUUCGAUUCGGGACUGCAAGUCUAUGUAAAAACGUGAAGGAGAAUGCAAAACAAUUUGG
....((...---------.)).((((......(..((((((((((.(((((((...((((((.((.......)).))))))....)))))))..).)))))))))..).......)))). ( -27.02)
>consensus
CAAGCCAAU_________AGCACAGAA_AAAGGACUUCUCCUUCCAUUUUGCAGUUUUUGCAUUCGAUUCGGGACUGCAAGUCUAUGUAAAAACGUGAAGGAGAAUGCAAAACAAUUUGG
......................((((......(..(((((((((......((.((((((((((..((((((......)))))).)))))))))))))))))))))..).......)))). (-25.53 = -26.10 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:16 2006