Locus 1890

Sequence ID 3L_DroMel_CAF1
Location 5,290,768 – 5,290,873
Length 105
Max. P 0.993471
window2944

overview

Window 4

Location 5,290,768 – 5,290,873
Length 105
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 71.89
Mean single sequence MFE -21.52
Consensus MFE -9.00
Energy contribution -10.04
Covariance contribution 1.04
Combinations/Pair 1.07
Mean z-score -2.40
Structure conservation index 0.42
SVM decision value 2.40
SVM RNA-class probability 0.993471
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5290768 105 + 23771897
CACAAACACACUGGCACACACAUAUACACAUAU-AGAUACUAGCCCAGUUUAGGGGCUACAAAUUCAACUGUAAAAAUUGCUGCAGUUAAAUACUGCACUUGAUAA
..(((.......((((........((((.....-......((((((.......))))))..........)))).....))))(((((.....)))))..))).... ( -18.72)
>DroPse_CAF1 78857 98 + 1
CAC--CCGCCCUUACCCACG--CUUACAGCUG-GGG---CUGGAGCUGGAGCUGGGCUACAAAUUCAACUGUAAAAAUUGCUGCAGUUAAAUACUGCACUUGAUAA
...--..((((....(((.(--(((.((((..-..)---))))))))))....))))((((........))))........((((((.....))))))........ ( -30.00)
>DroSim_CAF1 39028 85 + 1
CAC--ACACACUGGCACACA-------------------CUAGCCCAGUUUAGGGGCUACAAAUUCAACUGUAAAAAUUGCUGCAGUUAAAUACUGCACUUGAUAA
...--...((...(((....-------------------.((((((.......))))))...(((.(((((((........))))))).)))..)))...)).... ( -18.60)
>DroAna_CAF1 36710 88 + 1
CUCUUACCC------ACACACACACACA-----------CAUGUCCUGCUU-GGGACUACAAAUUCAACUGUAAAAAUUGCUGCAGUUAAAUACUGCACUUGAUAA
.........------.............-----------...(((((....-)))))((((........))))........((((((.....))))))........ ( -14.40)
>DroPer_CAF1 78786 86 + 1
CAC--CCGCCCUUACCCACG--CUUACAGCUG-GGG---C------------UGGGCUACAAAUUCAACUGUAAAAAUUGCUGCAGUUAAAUACUGCACUUGAUAA
...--..((((...((((.(--(.....))))-)).---.------------.))))((((........))))........((((((.....))))))........ ( -25.90)
>consensus
CAC__ACACACUGACACACA__CAUACA__U____G___CUAGCCCAGUUU_GGGGCUACAAAUUCAACUGUAAAAAUUGCUGCAGUUAAAUACUGCACUUGAUAA
..........................................((((.......))))((((........))))........((((((.....))))))........ ( -9.00 = -10.04 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:12 2006