Locus 4281

Sequence ID	2R_DroMel_CAF1
Location	14,084,002 – 14,084,115
Length	113
Max. P	0.990099

overview

Window 0

Location	14,084,002 – 14,084,115
Length	113
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	73.94
Mean single sequence MFE	-26.63
Consensus MFE	-15.55
Energy contribution	-16.33
Covariance contribution	0.79
Combinations/Pair	1.18
Mean z-score	-1.66
Structure conservation index	0.58
SVM decision value	0.29
SVM RNA-class probability	0.671573
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14084002 113 + 20766785
CCUGCUUAAGUA---ACCACUUUCAGCGGUUUGGCAAUAAAGCGAAUUUUUAUUGC----UAUUUGCAGGAGGAAAUCUAAAUUUCGUUUUCAAGAUUUUCUACUGAGUGGUCCUAAGUC
...(((((.(..---(((((((...((((..(((((((((((.....)))))))))----)).))))((.((((((((((((......)))..))))))))).)))))))))).))))). ( -31.50)
>DroSim_CAF1 8985 113 + 1
CCUGCUUAAGUA---ACCACUUUCAGCGGUUUGGCAGUAAAGUGAAUUUUUAUUGC----UAUUUGUAGGAGAAAAUCUAAAUUUCGUUUUCCAGAUUUUCCCCUGAGCGAUCCUAAGUC
.(((((.((((.---...))))..)))))..(((((((((((.....)))))))))----)).(((((((.(((((((((((......)))..)))))))).)))..))))......... ( -27.90)
>DroYak_CAF1 9623 119 + 1
CCUUCUGCAGUAGUUACUACUUUCAGCGGUUAAGUAAUAAAGUUCGUUUUUAUUGCAUUUUAUUUGUCCGAGAAAAUGGAAUUUG-UAAUUUUAGAUUUUCCCUUAAGCGCUUUAGUUUC
........(((((...)))))...((((.(((((((((((((.....))))))))).............(((((..((((((...-..))))))..)))))..)))).))))........ ( -20.50)
>consensus
CCUGCUUAAGUA___ACCACUUUCAGCGGUUUGGCAAUAAAGUGAAUUUUUAUUGC____UAUUUGUAGGAGAAAAUCUAAAUUUCGUUUUCAAGAUUUUCCCCUGAGCGAUCCUAAGUC
.(((((.((((.......))))..)))))....(((((((((.....)))))))))..........((((.(((((((((((......)))..)))))))).)))).............. (-15.55 = -16.33 +   0.79)

alignment

secondary structure

dotplot

Window 1

Location	14,084,002 – 14,084,115
Length	113
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	73.94
Mean single sequence MFE	-24.77
Consensus MFE	-15.77
Energy contribution	-19.67
Covariance contribution	3.90
Combinations/Pair	1.17
Mean z-score	-2.05
Structure conservation index	0.64
SVM decision value	2.20
SVM RNA-class probability	0.990099
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14084002 113 - 20766785
GACUUAGGACCACUCAGUAGAAAAUCUUGAAAACGAAAUUUAGAUUUCCUCCUGCAAAUA----GCAAUAAAAAUUCGCUUUAUUGCCAAACCGCUGAAAGUGGU---UACUUAAGCAGG
.(((.((.....)).)))((.((((((.((........)).)))))).))(((((.....----((((((((.......))))))))..((((((.....)))))---)......))))) ( -26.00)
>DroSim_CAF1 8985 113 - 1
GACUUAGGAUCGCUCAGGGGAAAAUCUGGAAAACGAAAUUUAGAUUUUCUCCUACAAAUA----GCAAUAAAAAUUCACUUUACUGCCAAACCGCUGAAAGUGGU---UACUUAAGCAGG
(.((((((.......(((((((((((((((........))))))))))))))).......----(((.((((.......)))).)))..((((((.....)))))---).)))))))... ( -32.00)
>DroYak_CAF1 9623 119 - 1
GAAACUAAAGCGCUUAAGGGAAAAUCUAAAAUUA-CAAAUUCCAUUUUCUCGGACAAAUAAAAUGCAAUAAAAACGAACUUUAUUACUUAACCGCUGAAAGUAGUAACUACUGCAGAAGG
........((((.(((((................-.....(((........)))............((((((.......)))))).))))).))))....(((((....)))))...... ( -16.30)
>consensus
GACUUAGGACCGCUCAGGGGAAAAUCUAGAAAACGAAAUUUAGAUUUUCUCCUACAAAUA____GCAAUAAAAAUUCACUUUAUUGCCAAACCGCUGAAAGUGGU___UACUUAAGCAGG
..((((((......((((((((((((((((........))))))))))))))))..........((((((((.......))))))))...(((((.....))))).....)))))).... (-15.77 = -19.67 +   3.90)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:04 2006