Locus 4477

Sequence ID 3L_DroMel_CAF1
Location 12,967,671 – 12,967,791
Length 120
Max. P 0.643279
window6981

overview

Window 1

Location 12,967,671 – 12,967,791
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.00
Mean single sequence MFE -24.08
Consensus MFE -18.58
Energy contribution -18.58
Covariance contribution 0.00
Combinations/Pair 1.14
Mean z-score -1.60
Structure conservation index 0.77
SVM decision value 0.23
SVM RNA-class probability 0.643279
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12967671 120 + 23771897
AAAUAUAAAAUAGAAAGGGAAAUGCAACUGGGGUUGAGUGAGCAUAAUUAAGGAUACUUCACCCGAUGCCAUUAAGUGCAAUGAACUAAGUGGAUUAAGUGCAUUUAGGAGGACAAAAAA
...................(((((((.((.((((.(((((..(........)..))))).))))(((.(((((.(((.......))).)))))))).))))))))).............. ( -24.00)
>DroSec_CAF1 84943 120 + 1
AAAUUAAAAAUAGAAAGGGAAAUGCAUUUGGGGUUGAGUGAGCAUAAUUAAAGAUACUUCACCCGAUGCCAUUAAGUGCAAUGAACUAAGUGGAUUAAGUGCAUUUAGAAGGGCACAAAU
...................(((((((((((((((.(((((..............))))).))))....(((((.(((.......))).)))))..))))))))))).............. ( -26.04)
>DroSim_CAF1 89851 120 + 1
AAAUAUAAAAUAGAAAGGGAAAUGCAUCUGGGGUUGAGUGAGCAUAAUUAAAGAUACUUCACCCGAUGCCAUUAAUUGCAAUGAACUAAGUGGAUUAAGUGCAUUUAGAAGGGCAAAAAU
.......................(((((..((((.(((((..............))))).)))))))))......((((..(...(((((((.((...)).))))))).)..)))).... ( -23.14)
>DroEre_CAF1 90809 118 + 1
GA-AAUAAAAUAGAAAGGGAAAUGUAUCUGGGGUUGAGUGAGCGUAAUUAAAUAUACUCCAGCCGACACCAUCAAGUGCAAUGAACUAAGUGGAUUAAGUGCAUUUAGGAGGGCGAAAA-
..-.........((...((...(((..(((((((....(((......))).....)))))))...))))).))...(((......(((((((.((...)).)))))))....)))....- ( -21.40)
>DroYak_CAF1 88945 120 + 1
UAAAAUAAAAUAGGAAGGGUAAUGUAUCUGGGGUUGAGUGAGCAUAAUUAAAGAUACUUCAGCCGGCACCAUCAAGUGCAAUGAACUAAGUGGAUUAAGUGCAUUUAGAAGGGCAAAAAU
.......................((((((..(((((.(....).)))))..))))))....(((.((((......))))......(((((((.((...)).)))))))...)))...... ( -25.80)
>consensus
AAAUAUAAAAUAGAAAGGGAAAUGCAUCUGGGGUUGAGUGAGCAUAAUUAAAGAUACUUCACCCGAUGCCAUUAAGUGCAAUGAACUAAGUGGAUUAAGUGCAUUUAGAAGGGCAAAAAU
......................(((((.(((.((((.(((((.((........)).)).))).)))).)))....))))).....(((((((.((...)).)))))))............ (-18.58 = -18.58 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:16 2006