Locus 1377

Sequence ID 2R_DroMel_CAF1
Location 5,320,591 – 5,320,695
Length 104
Max. P 0.544720
window2371

overview

Window 1

Location 5,320,591 – 5,320,695
Length 104
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 82.08
Mean single sequence MFE -30.65
Consensus MFE -19.04
Energy contribution -19.88
Covariance contribution 0.84
Combinations/Pair 1.12
Mean z-score -1.80
Structure conservation index 0.62
SVM decision value 0.02
SVM RNA-class probability 0.544720
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5320591 104 - 20766785
CAUACCCAAAUGACGUGUUAAAAAAGCGC-----AACAACGGCGAGCGACAGUUACAGC-CCGAAUGCGUUGUAAUUGUCAGCUGAAAGGACAUGCGAGGAGGAGAAGGA--------
....(((...((.((((((.....(((((-----.......))....((((((((((((-........)))))))))))).))).....))))))))..).)).......-------- ( -29.50)
>DroSec_CAF1 37484 102 - 1
CAUACCCAAAUGACGGGUUAAAAAAGCGC-----AGCAACGGCGAGCGACAGUUACAGC-CCGAAUGCGUUGUAAUUGUCAGCUGAAAGGACAUGCGAGGAGGAGGAG----------
...((((.......))))........(((-----(((....)).(((((((((((((((-........)))))))))))).))).........))))...........---------- ( -28.80)
>DroSim_CAF1 43721 102 - 1
CAUACCCAAAUGAAGGGUUAAAAAAGCGC-----AGCAACGGCGAGCGACAGUUACAGC-CCGAAUGCGUUGUAAUUGUCAGCUGAAAGGACAUGCGAGGAGGAGGAG----------
...((((.......))))........(((-----(((....)).(((((((((((((((-........)))))))))))).))).........))))...........---------- ( -28.80)
>DroEre_CAF1 38265 96 - 1
CAUGCCCAAAUGACGGGCUAAAAAAGCGC-----AUCAACGGCGAGCGACAGUUACAGG-CCGAGUGCGUUGUAAUUGUCAGCUGAAAGGACAUGCGAGGA------U----------
((((.((...(((.(.(((.....))).)-----.))).((((....((((((((((((-(.....)).))))))))))).))))...)).))))......------.---------- ( -31.00)
>DroYak_CAF1 33538 102 - 1
CAUACCCAAAUGACGGGCUAAAAAAGCGC-----AGCAGCGGCGAGCGACAGUUACAGG-CAGAAUGCGUUGUAAUUGUCAGCUGAAAGGACAUGCGAGGAGGGGGGU----------
...((((...(..(..((..........(-----(((.((.....))((((((((((((-(.....)).))))))))))).)))).........))..)..)..))))---------- ( -32.61)
>DroAna_CAF1 33552 110 - 1
CAUACCCU--------GUUAAAGGAUAGCCAUCAAGCAAUGUCGAGCGACAGUUACAGCACCGAAUGCGUUGUAAUUGUCAGCUGAACGGACAAGUGAAGAGGAGCGGCAGCGGCAUA
.....(((--------.....)))...(((.(((.....(((..(((((((((((((((.(.....).)))))))))))).)))..)))......)))......((....)))))... ( -33.20)
>consensus
CAUACCCAAAUGACGGGUUAAAAAAGCGC_____AGCAACGGCGAGCGACAGUUACAGC_CCGAAUGCGUUGUAAUUGUCAGCUGAAAGGACAUGCGAGGAGGAGGAG__________
...((((.......))))........(((..........((((....((((((((((((.(.....).)))))))))))).)))).........)))..................... (-19.04 = -19.88 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:26 2006