Locus 4882

Sequence ID 2R_DroMel_CAF1
Location 15,961,345 – 15,961,445
Length 100
Max. P 0.806351
window7832

overview

Window 2

Location 15,961,345 – 15,961,445
Length 100
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 69.07
Mean single sequence MFE -18.92
Consensus MFE -10.65
Energy contribution -11.32
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 0.56
SVM decision value 0.63
SVM RNA-class probability 0.806351
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15961345 100 + 20766785
AACUC-----ACCAGCAUCCCACCACCCAA-CC--AACACCCAUCUACCGAUGUUGGC-UGCAU-----GCGAAAUUCAUCGAAUUCAUAAAAUGGAUUUAUGAAGAGCGCUCU
....(-----(((((((((...........-..--..............)))))))).-))...-----(((...(((((.((((((((...)))))))))))))...)))... ( -21.73)
>DroGri_CAF1 107363 104 + 1
GACUC-----C---UUUGCCAACCCCUUUGCCGAUCGCUGCCAUCUGUUCGAGUUUGCUUGCAUAUUAAACAAAAUUCAUCGAAAUCAUAAAAUGGAUUUAUGAAGUGAACG--
.....-----.---.................((.(((((........(((((.((((.(((.....))).)))).....))))).(((((((.....)))))))))))).))-- ( -14.60)
>DroSec_CAF1 17293 78 + 1
----------------------------AACCC--ACCACCCAUCUACCGAUUUUGGC-UGCAU-----GCGAAAUUCAUCGAAUUCAUAAAAUGGAUUUAUGAAGAGCGCUCU
----------------------------....(--((((...(((....)))..))).-))...-----(((...(((((.((((((((...)))))))))))))...)))... ( -15.50)
>DroSim_CAF1 17215 86 + 1
AACC--------------------AGCCAACCC--ACCACCCAUCUACCGAUGUUGGC-UGCAU-----GCGAAAUUCAUCGAAUUCAUAAAAUGGAUUUAUGAAGAGCGCUCU
...(--------------------(((((((..--.......(((....)))))))))-))...-----(((...(((((.((((((((...)))))))))))))...)))... ( -24.10)
>DroEre_CAF1 23887 85 + 1
GCCCC----------------ACCUC-----CG--AACACCCAGCUUUCCAUGUUGGC-UGCAU-----GCGAAAUUCAUCGAAUUCAUAAAAUGGAUUUAUGAAGAGCGCUCU
.....----------------.....-----..--..((.(((((.......))))).-))...-----(((...(((((.((((((((...)))))))))))))...)))... ( -19.80)
>DroYak_CAF1 24640 101 + 1
GCCCCACCUAUCCACCUGCCCACCUC-----CC--AACGCCCACCAUUCCAUGUUGGC-UGCAU-----GCGAAAUUCAUCGAAUUCAUAAAAUGGAUUUAUGAAGAGCGCUCU
..........................-----..--...(((.((........)).)))-.....-----(((...(((((.((((((((...)))))))))))))...)))... ( -17.80)
>consensus
GACCC________________ACCAC__AA_CC__AACACCCAUCUACCCAUGUUGGC_UGCAU_____GCGAAAUUCAUCGAAUUCAUAAAAUGGAUUUAUGAAGAGCGCUCU
.....................................................................(((...(((((.((((((((...)))))))))))))...)))... (-10.65 = -11.32 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:25 2006