Locus 306

Sequence ID 2R_DroMel_CAF1
Location 2,044,231 – 2,044,324
Length 93
Max. P 0.664354
window627

overview

Window 7

Location 2,044,231 – 2,044,324
Length 93
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 75.48
Mean single sequence MFE -27.04
Consensus MFE -12.28
Energy contribution -11.53
Covariance contribution -0.75
Combinations/Pair 1.44
Mean z-score -1.96
Structure conservation index 0.45
SVM decision value 0.28
SVM RNA-class probability 0.664354
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2044231 93 + 20766785
AGGCUUUAUCA-----AAGUCUCU----UCUUGG--AG---A-CUACCUGUGCAAAA-UCUUGCUUCAUUGCGCCGCCAAAAGUUCAGUGGAGCAUGA-UGCGCUUUCAC
...........-----.(((((((----....))--))---)-))....(((((...-((.((((((((((.((........)).)))))))))).))-)))))...... ( -30.10)
>DroGri_CAF1 101356 107 + 1
AUACCUUAUAACAUAAUAACAUUUUUGCACUUUGCGAGACAAGCGACGUGCUAAAAGUUCUUGCUUCACUGCGUCGCUGGAAGUUCAGUGAAGCAUGAAAGCGCUUU---
.....................((((.((((.((((.......)))).)))).)))).(((.((((((((((..((....))....)))))))))).)))........--- ( -29.10)
>DroSec_CAF1 29031 93 + 1
ACGCUUUAUCA-----AAGUCUCU----UCUUGG--AG---A-CUACCUGUGCAAAA-UCUUGCUUCAUUGCGCCGCCAAAAGUUCAGUGGAGCAUGA-UGCGCUUUCAC
...........-----.(((((((----....))--))---)-))....(((((...-((.((((((((((.((........)).)))))))))).))-)))))...... ( -30.10)
>DroSim_CAF1 29634 93 + 1
ACGCUUUAUCA-----AAGUCUCU----UCUUGG--AG---A-CUACCUGUGCAAAA-UCUUGCUUCAUUGCGCCGCCAAAAGUUCAGUGGAGCAUGA-UGCGCUUUCAC
...........-----.(((((((----....))--))---)-))....(((((...-((.((((((((((.((........)).)))))))))).))-)))))...... ( -30.10)
>DroYak_CAF1 31829 93 + 1
ACGAUUUAUCA-----AAGUCUCU----UCUUGG--AG---G-UUACCUGUUAAAGA-GCUUGCUUCAAUGCGUCGCCAAAAGUUCAGUGGACCAUGA-GGCGCUUUCAC
..((.......-----(((.((((----(...(.--((---(-...))).)..))))-))))((((((.((.(((...............))))))))-)))....)).. ( -18.26)
>DroMoj_CAF1 50573 102 + 1
ACACCUUAUCACAUAAUAGCAUUUUAGCACUUGG--AG---AGCGACCUGCUGAAAAUGUUUGCUUCAUUGCGUCGCUUGAUGUUCAGUGGAGCAUGAAAGCGCUUU---
....(((.(((......((((((((((((...((--..---.....))))))).)))))))((((((((((((((....))))..))))))))))))))))......--- ( -24.60)
>consensus
ACGCUUUAUCA_____AAGUCUCU____UCUUGG__AG___A_CUACCUGUGCAAAA_UCUUGCUUCAUUGCGCCGCCAAAAGUUCAGUGGAGCAUGA_UGCGCUUUCAC
.................................................(((......((.((((((((((..(........)..)))))))))).)).)))........ (-12.28 = -11.53 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:02 2006