Locus 647

Sequence ID 3R_DroMel_CAF1
Location 2,393,446 – 2,393,540
Length 94
Max. P 0.570411
window1024

overview

Window 4

Location 2,393,446 – 2,393,540
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.82
Mean single sequence MFE -27.81
Consensus MFE -15.63
Energy contribution -15.47
Covariance contribution -0.16
Combinations/Pair 1.35
Mean z-score -2.17
Structure conservation index 0.56
SVM decision value 0.07
SVM RNA-class probability 0.570411
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2393446 94 - 27905053
---CACAUGUG------------CCAC-------U--GCGAGUGAGUGUGCGUGCUUAUGCAGAUGAGUUGCCAGUAACGUGUGGAAAAUUAUGAAGAUAAAUUUGUG--UUUGUCUUUU
---(((((((.------------..((-------(--((((.(..((.(((((....))))).)).).))).)))).))))))).........((((((((((....)--))))))))). ( -28.50)
>DroGri_CAF1 167668 108 - 1
ACACACAUACU------------UGACUAUCUUAUAUGAAUAUGGGUGUGUGCCUUCAUGUAGAUGAGUUGACAGUAAUGUGCUGAAAAUUAUGAAGAUGAAUUUCUCUCUCUGUCUUCU
.((((((((((------------..(((((((.((((((....((((....)))))))))))))).)))..)..)).))))).))........((((((((.........)).)))))). ( -24.70)
>DroSim_CAF1 98692 94 - 1
---CACAUGUG------------CCAC-------U--GCGAGUGAGUGUGCGUGCUUAUGCAGAUGAGUUGCCAGUAACGUGUGGAAAAUUAUGAAGAUAAAUUUGUG--UUUGUCUUUU
---(((((((.------------..((-------(--((((.(..((.(((((....))))).)).).))).)))).))))))).........((((((((((....)--))))))))). ( -28.50)
>DroEre_CAF1 100297 94 - 1
---CACAUGUG------------CCAC-------U--GCGAGUGAGUGUGCGUGCUUAUGCAGAUGAGUUGCCAGUAACGUGUGGAAAAUUAUGAAGAUAAAUUUGUG--UUUGUCUUUU
---(((((((.------------..((-------(--((((.(..((.(((((....))))).)).).))).)))).))))))).........((((((((((....)--))))))))). ( -28.50)
>DroYak_CAF1 94638 94 - 1
---CACAUGUG------------CCAC-------U--GCGAGUGAGUGUGCGUGCUUAUGCAGAUGAGUUGCCAGUAACGUGUGGAAAAUUAUGAAGAUAAAUUUGUG--UUUGUCUUUU
---(((((((.------------..((-------(--((((.(..((.(((((....))))).)).).))).)))).))))))).........((((((((((....)--))))))))). ( -28.50)
>DroAna_CAF1 98261 104 - 1
---CGCAUGUGUGUGUCUGUAUGCCA-----------GAGUGUGUGUGUGCGUGCUUAUGCAGAUGAGUUGCCAGUAACGUGUGGAAAAUUAUGAAGAUAAAUUUGUG--UUUGUCUUUU
---(((((((...(((((((((....-----------(((..(((....)))..))))))))))))...........))))))).........((((((((((....)--))))))))). ( -28.14)
>consensus
___CACAUGUG____________CCAC_______U__GCGAGUGAGUGUGCGUGCUUAUGCAGAUGAGUUGCCAGUAACGUGUGGAAAAUUAUGAAGAUAAAUUUGUG__UUUGUCUUUU
...(((((((...............................((((((......))))))((((.....)))).....))))))).........(((((((((........))))))))). (-15.63 = -15.47 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:16 2006