Locus 5449

Sequence ID	X_DroMel_CAF1
Location	14,184,341 – 14,184,459
Length	118
Max. P	0.844871

overview

Window 6

Location	14,184,341 – 14,184,459
Length	118
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	92.26
Mean single sequence MFE	-26.95
Consensus MFE	-20.70
Energy contribution	-21.20
Covariance contribution	0.50
Combinations/Pair	1.12
Mean z-score	-1.68
Structure conservation index	0.77
SVM decision value	-0.00
SVM RNA-class probability	0.531165
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14184341 118 + 22224390
GUGGGAAAGAAAUUUAUCCCUAAGCCAGAUUGGUUAGUGGAUUGCUUAAUUGAAGUAAAGCAAAUUGCUUUUCCAGGAAUGU-GUAAGCUAACAAUUAGAUUAUUAAAAUUGGCUCACU
.((((((((.(((((((((((((.((.....)))))).)))).((((.((....)).))))))))).)))))))).....((-(..((((((...((((....))))..))))))))). ( -27.30)
>DroSec_CAF1 94758 117 + 1
GUGGGAAAGAAAUUUAUCCUU-AGCCAGAUUGGUUAGUGGAUUGCUUAAUUGAAGCAAACGAAAUUGCUUUUCCAGGAAUGU-GUAAGUUAACAAUUAGAUUAUUAAAAUUCGCUCACU
.((((((((.(((((.(((((-((((.....)))))).)))((((((.....))))))...))))).)))))))).((((..-((((.(((.....))).))))....))))....... ( -27.20)
>DroSim_CAF1 72289 118 + 1
GUGGGAAAGAAAUUUAUCCUUAAGCCAGAUUGGUUAGUGGAUUGCUUAAUUGAAGCAAAGCAAAUUGCUUUUCCAGGAAUGU-GUAAGUUAACAAUUAGAUUAUUAAAAUUGGCUCACU
.((((((((.(((((.(((...((((.....))))...)))((((((.....))))))...))))).)))))))).....((-(..((((((...((((....))))..))))))))). ( -25.40)
>DroYak_CAF1 85018 116 + 1
GUGGGAAACAAAUUUAUCCCUAAGCCAGAUUAGAUAGUGGGUUGCUUAAUUGAAGCAAAGCAAAUUGCUUUCCCAGGAAUGUA---AGUUAACAAUUAGAUUAUUAAAAUUGGCUUACA
..((((..........))))((((((((.((.(((((((((..((((.....))))(((((.....)))))))).....(((.---.....))).....)))))).)).)))))))).. ( -27.90)
>consensus
GUGGGAAAGAAAUUUAUCCCUAAGCCAGAUUGGUUAGUGGAUUGCUUAAUUGAAGCAAAGCAAAUUGCUUUUCCAGGAAUGU_GUAAGUUAACAAUUAGAUUAUUAAAAUUGGCUCACU
.((((((((.(((((.(((((.((((.....)))))).)))((((((.....))))))...))))).))))))))........((.((((((...((((....))))..)))))).)). (-20.70 = -21.20 +   0.50)

alignment

secondary structure

dotplot

Window 7

Location	14,184,341 – 14,184,459
Length	118
Sequences	4
Columns	119
Reading direction	reverse
Mean pairwise identity	92.26
Mean single sequence MFE	-24.05
Consensus MFE	-18.24
Energy contribution	-19.30
Covariance contribution	1.06
Combinations/Pair	1.09
Mean z-score	-2.80
Structure conservation index	0.76
SVM decision value	0.76
SVM RNA-class probability	0.844871
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14184341 118 - 22224390
AGUGAGCCAAUUUUAAUAAUCUAAUUGUUAGCUUAC-ACAUUCCUGGAAAAGCAAUUUGCUUUACUUCAAUUAAGCAAUCCACUAACCAAUCUGGCUUAGGGAUAAAUUUCUUUCCCAC
.(((((((((((..........)))))...))))))-.......(((.((((.(((((((((..........)))).((((.((((((.....)).))))))))))))).)))).))). ( -26.20)
>DroSec_CAF1 94758 117 - 1
AGUGAGCGAAUUUUAAUAAUCUAAUUGUUAACUUAC-ACAUUCCUGGAAAAGCAAUUUCGUUUGCUUCAAUUAAGCAAUCCACUAACCAAUCUGGCU-AAGGAUAAAUUUCUUUCCCAC
.(((((......((((((((...)))))))))))))-.......(((.((((.(((((....(((((.....)))))((((..((.((.....)).)-).))))))))).)))).))). ( -18.50)
>DroSim_CAF1 72289 118 - 1
AGUGAGCCAAUUUUAAUAAUCUAAUUGUUAACUUAC-ACAUUCCUGGAAAAGCAAUUUGCUUUGCUUCAAUUAAGCAAUCCACUAACCAAUCUGGCUUAAGGAUAAAUUUCUUUCCCAC
..(((((((...((((((((...)))))))).....-.......(((((((((.....)))))((((.....))))..))))..........))))))).(((..........)))... ( -22.70)
>DroYak_CAF1 85018 116 - 1
UGUAAGCCAAUUUUAAUAAUCUAAUUGUUAACU---UACAUUCCUGGGAAAGCAAUUUGCUUUGCUUCAAUUAAGCAACCCACUAUCUAAUCUGGCUUAGGGAUAAAUUUGUUUCCCAC
..(((((((...((((((((...))))))))..---........(((((((((.....)))))((((.....))))..))))..........)))))))((((..........)))).. ( -28.80)
>consensus
AGUGAGCCAAUUUUAAUAAUCUAAUUGUUAACUUAC_ACAUUCCUGGAAAAGCAAUUUGCUUUGCUUCAAUUAAGCAAUCCACUAACCAAUCUGGCUUAAGGAUAAAUUUCUUUCCCAC
..(((((((...((((((((...)))))))).............(((((((((.....)))))((((.....))))..))))..........)))))))((((..........)))).. (-18.24 = -19.30 +   1.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:10 2006