Locus 5654

Sequence ID 2R_DroMel_CAF1
Location 17,956,641 – 17,956,755
Length 114
Max. P 0.500000
window9064

overview

Window 4

Location 17,956,641 – 17,956,755
Length 114
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 91.05
Mean single sequence MFE -29.68
Consensus MFE -22.25
Energy contribution -22.12
Covariance contribution -0.12
Combinations/Pair 1.12
Mean z-score -1.56
Structure conservation index 0.75
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17956641 114 + 20766785
UUUUGUGCCUCGUCGGUUUUCUAUUUAUCUCACUUUCUUUUGUUUGGGAUUUUAAAAUUCCCGCAAAAUGAAAGGCUCCGAGGUCGGUUUAUGUGCAUAUAU----AGGUACCA-CGUU
..........(((.(((..(((((.((((.(((((((((((((..((((.........)))))))))).)))))...(((....)))....)).).))).))----))).))))-)).. ( -27.00)
>DroSec_CAF1 13888 117 + 1
UUUUGUGCCUCGUCGGUUUUCUAUUUAUCUCGCUUUCUUUUGUUUGGGAUUUUA-AAUUCCCGCAGAAUGAAAGGCUCCGAGGUCGGGUUAUGUGCAUAUAUAUGUAGGUGCCA-CGUU
......((((((..(((.........)))...(((((((((((..((((.....-...)))))))))).)))))....))))))(((((.((.(((((....))))).))))).-)).. ( -31.30)
>DroSim_CAF1 9638 117 + 1
UUUUGUGCCUCGUCGGUUUUCUAUUUAUCUCGCUUUCUUUUGUUUGGGAUUUUA-AAUUCCCGCAGAAUGAAAGGCUCCGAGGUCGGUUUAUGUGCAUAUAUAUGUAGGUGCCA-CGUU
......((((((..(((.........)))...(((((((((((..((((.....-...)))))))))).)))))....)))))).(((..((.(((((....))))).))))).-.... ( -29.70)
>DroEre_CAF1 18505 111 + 1
UUUUGUGCCUCG---CUUUUCUAUUUAUCUCACAUUCCUUUGUUUGGGAUUUUA-AAUUCCCGCAGAAUGGAGGGCUCCGAGGUCGGUGUAUGUGCAUAUAU----AGGUACCAGCGUU
..........((---((..(((((.(((..(((((.((((..(((((((.....-...))))...)))..))))((.(((....))).))))))).))).))----)))....)))).. ( -30.70)
>consensus
UUUUGUGCCUCGUCGGUUUUCUAUUUAUCUCACUUUCUUUUGUUUGGGAUUUUA_AAUUCCCGCAGAAUGAAAGGCUCCGAGGUCGGUUUAUGUGCAUAUAU____AGGUACCA_CGUU
....((((((......................(((((((((((..((((.........)))))))))).)))))((.(((....))).......))..........))))))....... (-22.25 = -22.12 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:07 2006