Locus 2259

Sequence ID 2R_DroMel_CAF1
Location 8,313,979 – 8,314,071
Length 92
Max. P 0.985758
window3712 window3713

overview

Window 2

Location 8,313,979 – 8,314,071
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 90.54
Mean single sequence MFE -22.24
Consensus MFE -19.02
Energy contribution -18.54
Covariance contribution -0.48
Combinations/Pair 1.19
Mean z-score -2.03
Structure conservation index 0.86
SVM decision value 2.02
SVM RNA-class probability 0.985758
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8313979 92 + 20766785
CGAGUCUUUGGCAGUAAGUCGAAUUGUGAAUCGAUUUAGGGAUUUUCAAAAAUAACCAAAUCUUUGAAAUCGACUUACGAUUUUUCUUUUCG
(((((.....))...(((..(((((((((.(((((((((((((((............))))))))).)))))).)))))))))..))).))) ( -21.30)
>DroSec_CAF1 31072 92 + 1
CGAGUCUAUGGCAGUAAGUCAAAUUGUGAAUCGAUUUAGGGAUUUCCAAAAAUAACCAAAUCUUUGGAAUCGACUUACGAUUUUUCUUUUCG
(((((.....))...(((..(((((((((.(((((((((((((((............)))))))).))))))).)))))))))..))).))) ( -20.90)
>DroSim_CAF1 26741 92 + 1
CGAGUCUUUGGCAGUAAGUCAAAUUGUGAGUCGAUUUAGGGAUUUCCAAAAAUAACCAAAUCUUUGAAAUCGACUUACGAUUUUUCUUUUCG
(((((.....))...(((..(((((((((((((((((((((((((............))))))))).))))))))))))))))..))).))) ( -26.90)
>DroEre_CAF1 27462 92 + 1
CGACUCUUUGGAAGUAAGUCAAAUUGUGAAUCGAUUUAGGGGUUUCUAGAAAUAACAAAAUCUUUGAAAUCGACUUACGAUUUUCCUUUUCG
..........(((..(((..(((((((((.(((((((((((((((.((....))...))))))))).)))))).)))))))))..)))))). ( -22.00)
>DroYak_CAF1 27865 92 + 1
CGACUCUUUGGGACUAAGUCGAAAUGUGAAUCGAUUUGGGGAUUUCUAAAAAUAAGCAAAUCUUUGAAAUCGACUUACGAUACGCCUUUUCG
(((((...........)))))...(((((.((((((..(((((((((.......)).)))))))..).))))).)))))............. ( -20.10)
>consensus
CGAGUCUUUGGCAGUAAGUCAAAUUGUGAAUCGAUUUAGGGAUUUCCAAAAAUAACCAAAUCUUUGAAAUCGACUUACGAUUUUUCUUUUCG
...............(((..(((((((((.(((((((((((((((............)))))))).))))))).)))))))))..))).... (-19.02 = -18.54 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 8,313,979 – 8,314,071
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 90.54
Mean single sequence MFE -17.52
Consensus MFE -14.93
Energy contribution -15.37
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -1.27
Structure conservation index 0.85
SVM decision value 0.03
SVM RNA-class probability 0.548993
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8313979 92 - 20766785
CGAAAAGAAAAAUCGUAAGUCGAUUUCAAAGAUUUGGUUAUUUUUGAAAAUCCCUAAAUCGAUUCACAAUUCGACUUACUGCCAAAGACUCG
..............(((((((((.......(((((((..((((....))))..)))))))..........)))))))))............. ( -19.33)
>DroSec_CAF1 31072 92 - 1
CGAAAAGAAAAAUCGUAAGUCGAUUCCAAAGAUUUGGUUAUUUUUGGAAAUCCCUAAAUCGAUUCACAAUUUGACUUACUGCCAUAGACUCG
..............(((((((((((((((((((......))))))))))(((........))).......)))))))))............. ( -19.20)
>DroSim_CAF1 26741 92 - 1
CGAAAAGAAAAAUCGUAAGUCGAUUUCAAAGAUUUGGUUAUUUUUGGAAAUCCCUAAAUCGACUCACAAUUUGACUUACUGCCAAAGACUCG
..............(((((((((.......(((((((..((((....))))..)))))))..........)))))))))............. ( -17.43)
>DroEre_CAF1 27462 92 - 1
CGAAAAGGAAAAUCGUAAGUCGAUUUCAAAGAUUUUGUUAUUUCUAGAAACCCCUAAAUCGAUUCACAAUUUGACUUACUUCCAAAGAGUCG
......((((....(((((((((.......(((((.....(((....))).....)))))..........)))))))))))))......... ( -14.23)
>DroYak_CAF1 27865 92 - 1
CGAAAAGGCGUAUCGUAAGUCGAUUUCAAAGAUUUGCUUAUUUUUAGAAAUCCCCAAAUCGAUUCACAUUUCGACUUAGUCCCAAAGAGUCG
.((((.(....((((...(..((((((((((((......)))))).))))))..)....))))...).))))(((((.........))))). ( -17.40)
>consensus
CGAAAAGAAAAAUCGUAAGUCGAUUUCAAAGAUUUGGUUAUUUUUGGAAAUCCCUAAAUCGAUUCACAAUUUGACUUACUGCCAAAGACUCG
..............(((((((((.......(((((((..((((....))))..)))))))..........)))))))))............. (-14.93 = -15.37 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:02 2006