Locus 2007

Sequence ID 3R_DroMel_CAF1
Location 5,700,526 – 5,700,635
Length 109
Max. P 0.725846
window3290

overview

Window 0

Location 5,700,526 – 5,700,635
Length 109
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 90.01
Mean single sequence MFE -25.60
Consensus MFE -18.85
Energy contribution -18.48
Covariance contribution -0.38
Combinations/Pair 1.10
Mean z-score -1.98
Structure conservation index 0.74
SVM decision value 0.41
SVM RNA-class probability 0.725846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5700526 109 + 27905053
AAAACCCAAGACAAACGGGCCCUCUUCUGGUGUUCCGUUUAGUUUUUUUGGGCAAUUUU-GAAGCAAAAUAGCCGCAUUCAC--AAAGCGAAAC-GCA------AAAAACCUAAAAGUC
.........(((((((((((((......)).).)))))))((.((((((((((.(((((-(...)))))).)))((......--...)).....-.))------))))).))....))) ( -24.80)
>DroSec_CAF1 3859 108 + 1
AAAACCCAAGACAAACGGGCCCUCUUCUGGUGUUCCGUUUAGUUU-UUUGGGCAAUUUU-GAAGCAGAAUAGCCACAUUCAC--AAAGCGAAAC-GCA------AAAAACAUAAAAGUC
.........(((((((((((((......)).).))))))).((((-(((((((.(((((-(...)))))).)))...(((..--.....)))..-.))------))))))......))) ( -26.60)
>DroSim_CAF1 3363 108 + 1
AAAACCCAAGGCAAACGGGCCCUCUUCUGGUGUUCCGUUUAGUUU-UUUGGGCAAUUUU-GAAGCAGAAUAGCCACAUUCAC--AAAGCGAAAC-GCA------AAAAACAUAAAAGUC
.........(((((((((((((......)).).))))))).((((-(((((((.(((((-(...)))))).)))...(((..--.....)))..-.))------))))))......))) ( -26.00)
>DroYak_CAF1 3795 118 + 1
AAAACCCAAGAUAAACGGGCCCACUUCUGGUGUUCCGUUUAGUUU-UUUGGGCGAUUUUCAAAGCAAAACAGCCACAUCCACCAAAAGCGAAAAGGCAGAAAAUAAAAACCUAAAAGUC
....(((((((((((((((((((....))).).))))))))...)-))))))..((((((...((......))..............((......)).))))))............... ( -25.00)
>consensus
AAAACCCAAGACAAACGGGCCCUCUUCUGGUGUUCCGUUUAGUUU_UUUGGGCAAUUUU_GAAGCAAAAUAGCCACAUUCAC__AAAGCGAAAC_GCA______AAAAACAUAAAAGUC
.........(((((((((((((......)).).))))))).((((...(((((.(((((......))))).))).))..........((......)).........))))......))) (-18.85 = -18.48 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:04 2006