Locus 2807

Sequence ID 2R_DroMel_CAF1
Location 9,773,847 – 9,773,943
Length 96
Max. P 0.667789
window4642

overview

Window 2

Location 9,773,847 – 9,773,943
Length 96
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 80.89
Mean single sequence MFE -25.33
Consensus MFE -17.98
Energy contribution -18.23
Covariance contribution 0.25
Combinations/Pair 1.21
Mean z-score -1.46
Structure conservation index 0.71
SVM decision value 0.28
SVM RNA-class probability 0.667789
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9773847 96 - 20766785
CAA-AAACGUUAAAAUUCGCAACUCCAGGGUUCAAUCAGAAAAGUCAGCUGA----GAGUC----CCCCUCGACCAGGGUUGCCAGAGUUGCGCAAUUGCUGCAG
...-....((...((((((((((((..(((..(..((((.........))))----..)..----)))..((((....))))...)))))))).))))...)).. ( -28.00)
>DroSec_CAF1 11963 94 - 1
CAA-AAACGUUAAAACUCGCAACUCCAGGGCUCAAUCAGAAAAGUCAGCUGA----GAGUC----CCCCUCGACCAGGGUUGCCAGAGUUGCGCAAUUACUGC--
...-.............((((((((..((((((..((((.........))))----)))))----)((((.....))))......))))))))..........-- ( -27.50)
>DroSim_CAF1 13064 94 - 1
CAA-AAACGUUAAAACUCGCAACUCCAGGGCUCAAUCAGAAAAGUCAGCUGA----GAGUC----CCCCUCGACCAGGGUUGCCAGAGUUGCGCAAUUACUGC--
...-.............((((((((..((((((..((((.........))))----)))))----)((((.....))))......))))))))..........-- ( -27.50)
>DroEre_CAF1 13190 96 - 1
CAAAAAACGUUAAAACUUGCAACUCCAGGG-CCAAUCAGAAAAGUCAGCUGA----GAGUC----CCCCUCAACCAGGGUUGCCAGAGUUGCGAACUAGCUGCAG
........((((....(((((((((..(((-(...((((.........))))----..)))----)((((.....))))......)))))))))..))))..... ( -25.70)
>DroYak_CAF1 13057 97 - 1
CAAAAAACGUUAAAACUUGCAACUCCACGGUCCAAUCAGAAAAAUCAGCUGA----GAGUC----CCCCUCAACCAGGGUUGCCAGAGUUGCGCAAUUGCUGCAG
..................(((((((..((..((..((((.........))))----(((..----...))).....))..))...)))))))(((.....))).. ( -22.90)
>DroAna_CAF1 11953 93 - 1
UCUGAAACGUAAAAACUUGCAACUCCUCGAACUCAGCAGUA-ACACAGCUGACUCCGAGUUUUCUCCCCCAGAUCGGGGUUGUCA----UGCGC-----CUGC--
.......((((......(((((((((..((((((((((((.-.....)))).))..))))))(((.....)))..))))))).))----)))).-----....-- ( -20.40)
>consensus
CAA_AAACGUUAAAACUCGCAACUCCAGGGCCCAAUCAGAAAAGUCAGCUGA____GAGUC____CCCCUCGACCAGGGUUGCCAGAGUUGCGCAAUUGCUGC__
.................((((((((...(((....((((.........))))..............((((.....))))..))).))))))))............ (-17.98 = -18.23 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:55 2006