Locus 5280

Sequence ID X_DroMel_CAF1
Location 13,823,918 – 13,824,017
Length 99
Max. P 0.612333
window8546

overview

Window 6

Location 13,823,918 – 13,824,017
Length 99
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 88.03
Mean single sequence MFE -18.43
Consensus MFE -14.12
Energy contribution -14.62
Covariance contribution 0.50
Combinations/Pair 1.15
Mean z-score -1.53
Structure conservation index 0.77
SVM decision value 0.16
SVM RNA-class probability 0.612333
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13823918 99 + 22224390
----AUAUAAUAUUUAGGCCCCAACUGGAUGAUCUAAGGUGUAAAAUAUUGCACACAGAUAAGAAAUAUAUUCCGCUGGCAACAGUCUUAAUUAAGAA----AAAAU
----(((((.(((((((.......)))))))((((...((((((....))))))..))))......)))))...((((....))))............----..... ( -18.10)
>DroSec_CAF1 129975 99 + 1
----AUAUAAUAUUUAGGCCCCAACUGGAUAAUCUAAGGUGUAAAAUAUUGCACACAGAUAAGAAAUAUAUUCCGCUGGCAACAGUCUCAGUUAAUAA----AAACU
----..................((((((...((((...((((((....))))))..))))..............((((....)))).)))))).....----..... ( -18.60)
>DroSim_CAF1 129871 97 + 1
----AUAUAAUAUUUAGGCCCCAACUGGAUAAUCUAAGGUGUAAAAUAUUGCA--CAGAUAAGAAAUAUAUUCCGCUGGCAACAGUCUAAGUUAAUUA----AAACU
----(((((.(((((((.......)))))))((((...((((((....)))))--)))))......)))))...((((....))))...((((.....----.)))) ( -16.60)
>DroYak_CAF1 142961 106 + 1
AUGUAUAUAAU-UUUAGGCCCCAACUGGCUAUUUCAAGGUGUAAAAUAUUGCACCCAGAUAAGAAAUGUGUUCCGCUGGCAACAGUCUUAAUUAAUAAAAAAAAACU
....(((((.(-(((.((((......))))...((..(((((((....)))))))..))..)))).)))))...((((....))))..................... ( -20.40)
>consensus
____AUAUAAUAUUUAGGCCCCAACUGGAUAAUCUAAGGUGUAAAAUAUUGCACACAGAUAAGAAAUAUAUUCCGCUGGCAACAGUCUUAAUUAAUAA____AAACU
....(((((.(((((((.......)))))))((((...((((((....))))))..))))......)))))...((((....))))..................... (-14.12 = -14.62 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:51 2006