Locus 2628

Sequence ID 2R_DroMel_CAF1
Location 9,285,217 – 9,285,318
Length 101
Max. P 0.837050
window4335

overview

Window 5

Location 9,285,217 – 9,285,318
Length 101
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 82.57
Mean single sequence MFE -30.57
Consensus MFE -16.84
Energy contribution -17.59
Covariance contribution 0.75
Combinations/Pair 1.19
Mean z-score -3.29
Structure conservation index 0.55
SVM decision value 0.74
SVM RNA-class probability 0.837050
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9285217 101 + 20766785
AAAUGUUGAUGGUCAAAAGUUGGC---UAACGCCUUGGCCAAAGCCAUGGCCAAAAAAGCAGCUCGAA-AUGCAGCCA---GCUAAAAGACAAAUAUCAAGUGAGUGG---
.....(((((((((...(((((((---(...(((.((((....)))).))).......(((.......-.))))))))---)))....)))...))))))........--- ( -31.30)
>DroPse_CAF1 134934 106 + 1
AAAAGUUGAUGGUCAAAAGUUGGCGUCUGGUGAAGUGGCCAAAGCCAUGGCCAAAAAAGCUGCUCCAAGAGGCAGACA-C-GUUCAAAGGCAAACAGCAAACGAGAAG---
....((((...((((.....))))((((..((((.((((((......)))))).....((((((......))))).).-.-.)))).))))...))))..........--- ( -29.70)
>DroSec_CAF1 170222 101 + 1
AAAUGUUGAUGGUCAAAAGUUGGC---UAACGCCUUGGCCAAAGCCAUGGCCAAAAAAGCAGCUCGAA-AUGCAGCUA---GCUAAAAGACAAAUAUCAAGUGAGUUG---
.....(((((((((...(((((((---(...(((.((((....)))).))).......(((.......-.))))))))---)))....)))...))))))........--- ( -29.00)
>DroSim_CAF1 156271 101 + 1
AAAUGUUGAUGGUCAAAAGUUGGC---UAACGCCUUGGCCAAAGCCAUGGCCAAAAAAGCAGCUCGAA-AUGCAGCCA---GCUAAAAGACAAAUAUCAAGUGAGUUA---
.....(((((((((...(((((((---(...(((.((((....)))).))).......(((.......-.))))))))---)))....)))...))))))........--- ( -31.30)
>DroEre_CAF1 156540 99 + 1
--AUGUUGAUGGUCAAAAGUUGGC---UAACGCCUUGGCCAAAGCCAUGGCCAAAAAAGCAGCUCGAA-AGGCAGCCA---GCUAAAAGACAAAUAUCAAGCGAGUGG---
--...(((((((((...(((((((---(...((.(((((((......)))))))....)).((.(...-.))))))))---)))....)))...))))))........--- ( -33.30)
>DroMoj_CAF1 255691 104 + 1
-AAAGUUUAUGGUCAAAAGUUAGC---AGGCA-CUUGGCCAAAGCCAUGGCCAAAAAUGCGUCUCACAGUUGCAGCCAACGGC-CAAAGACAAAUACCAA-CGAGCAGACC
-...((((.(((((....((.((.---(.(((-.(((((((......)))))))...))).))).)).((((....)))))))-)).)))).........-.......... ( -28.80)
>consensus
AAAUGUUGAUGGUCAAAAGUUGGC___UAACGCCUUGGCCAAAGCCAUGGCCAAAAAAGCAGCUCGAA_AUGCAGCCA___GCUAAAAGACAAAUAUCAAGCGAGUAG___
.....((((((........(((((..........(((((((......)))))))....(((.........)))........)))))........))))))........... (-16.84 = -17.59 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:57 2006