Locus 1861

Sequence ID 3R_DroMel_CAF1
Location 5,343,127 – 5,343,229
Length 102
Max. P 0.997152
window3062

overview

Window 2

Location 5,343,127 – 5,343,229
Length 102
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 70.94
Mean single sequence MFE -25.59
Consensus MFE -12.44
Energy contribution -12.95
Covariance contribution 0.50
Combinations/Pair 1.16
Mean z-score -2.84
Structure conservation index 0.49
SVM decision value 2.81
SVM RNA-class probability 0.997152
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5343127 102 + 27905053
CAAUGCCUGCAGCUAUAGCUGCUGUCA-----------------UUGACUUUACUUUCAUUUUAGCAGUGUAAGUUUUAAAUUUUGUUUCCUCCCAUCCAAGAUAUGAAACUGUAACUA
(((((.(.(((((....))))).).))-----------------)))...................(((...(((((((.((((((..(......)..)))))).)))))))...))). ( -24.80)
>DroSec_CAF1 2506 118 + 1
CAAUGUCUGCAGCCAUAUCUGCUGUCAAUAUAAAAUGUGUUAGUUUGACU-UACUUAGACUUUAGCAGUGUAAGUUUUACAUUUUGGUUGCUCCCAUCCAAGAUAUGAAACUGUAACUA
..((((..(((((.......)))))..)))).....((...(((((((..-...)))))))...))(((...(((((((.(((((((.((....)).))))))).)))))))...))). ( -28.50)
>DroSim_CAF1 1607 107 + 1
CAA------------UAUCUGCUGUCAAUAUAAAAUGUGUUAGUUUGACUUUACUUACACUUUAGCAGUGUACGUUUUACAUUUUGGUGGCUCCCAUCCAAGAUAUGAAACUAUAACUA
...------------...((((((............((((.(((........))).))))..))))))((((.((((((.((((((((((...))).))))))).)))))))))).... ( -24.94)
>DroYak_CAF1 3547 106 + 1
AAAUUUCAACAGCUUUAUUUGUUUUCAAUUUACAAUGUGU----UUGACC---------UUUUGGCGGUCGAAGUUUUAUAUUUUGGUUCCACCCAACCAAGAUAUACAACUGUAACUA
.......(((((......)))))......(((((.....(----((((((---------.......)))))))(((.((((((((((((......)))))))))))).))))))))... ( -24.10)
>consensus
CAAUGUCUGCAGCUAUAUCUGCUGUCAAUAUAAAAUGUGU____UUGACU_UACUUACACUUUAGCAGUGUAAGUUUUACAUUUUGGUUCCUCCCAUCCAAGAUAUGAAACUGUAACUA
....................((((((((................)))))..............)))(((...(((((((.(((((((..........))))))).)))))))...))). (-12.44 = -12.95 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:21 2006