Locus 2204

Sequence ID X_DroMel_CAF1
Location 5,961,669 – 5,961,768
Length 99
Max. P 0.652548
window3578

overview

Window 8

Location 5,961,669 – 5,961,768
Length 99
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 75.38
Mean single sequence MFE -14.88
Consensus MFE -7.68
Energy contribution -7.04
Covariance contribution -0.64
Combinations/Pair 1.33
Mean z-score -1.79
Structure conservation index 0.52
SVM decision value 0.25
SVM RNA-class probability 0.652548
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5961669 99 + 22224390
AACCAAGUUGAAACCAAAAGUAUAAGCACGCUAUAAGCA-AAGCCAAAAGUAAAUAAU--------UUAAGAG-AAGCAGCAAAGGCUCUUAGAUUACAUCAAAGAGCA---
......((((.........((....))..((.....)).-..................--------.......-...))))....((((((.(((...))).)))))).--- ( -13.40)
>DroSec_CAF1 7777 97 + 1
AACCAAGUUGAAAAUAAAAGUAUAAGCA--CUAUAAGCA-AAGCCAAAAGCAAAUAAU--------UUAAGAG-AAGCAGCAAAGGCUCUUAGAUUAAAUCAAAGAGCA---
......((((...............((.--......)).-..((.....)).......--------.......-...))))....((((((.(((...))).)))))).--- ( -14.20)
>DroEre_CAF1 13193 98 + 1
AACCAAGUUGAAACCAA-AAUAUAAGCACGCUAUAAGCA-AAGCUAAAAGCAAAUAAU--------UUAAGAG-AAGCAGCAAAGGCUCUUGGUUAAAAUCAAAGAGCA---
......((((.......-...........((.....)).-..((.....)).......--------.......-...))))....(((((((((....))).)))))).--- ( -15.20)
>DroWil_CAF1 10181 107 + 1
AACGAAACUUCAACACAAACUAAAAU---UCAAAAAUCAGAAGUGAAACAUAAAAACUUGGAAAAUUGAGCAGUAAGCAGC--UGGCUCUUUGGCUAAGACAAAGAGCAAAA
.........................(---((((...((..((((...........)))).))...)))))((((.....))--))((((((((.......)))))))).... ( -18.90)
>DroYak_CAF1 9184 98 + 1
AACCAAGUUAAACCCAA-UAUAUAAGCACGCUAUAAGCA-AAGUCAAAAGCAAAUAAU--------UUAAGAA-AAGCAGCAGAGGCUCUUGGAUUACAUCAAAGAGCA---
.................-.......((..((.....)).-.........((.......--------.......-..)).))....((((((.(((...))).)))))).--- ( -12.69)
>consensus
AACCAAGUUGAAACCAAAAAUAUAAGCACGCUAUAAGCA_AAGCCAAAAGCAAAUAAU________UUAAGAG_AAGCAGCAAAGGCUCUUAGAUUAAAUCAAAGAGCA___
..........................................((.....))..................................((((((.(.......).)))))).... ( -7.68 =  -7.04 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:46 2006