Locus 198

Sequence ID 3L_DroMel_CAF1
Location 565,332 – 565,452
Length 120
Max. P 0.565268
window286

overview

Window 6

Location 565,332 – 565,452
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Mean single sequence MFE -52.63
Consensus MFE -29.02
Energy contribution -30.22
Covariance contribution 1.20
Combinations/Pair 1.44
Mean z-score -1.88
Structure conservation index 0.55
SVM decision value 0.06
SVM RNA-class probability 0.565268
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 565332 120 + 23771897
AGCGGCCGGAGUAUCGGGACAAUAGCAUUGAGGUGGCCUUGAAAAAGGCCUUCCUCGACUUCGAUCGGGAGAUGCUGCAAAAUGGCUCCCUUGAUGAGCAAACGGCCGGCUGCACUGCCA
.((((((((.((...((((....((((((((((.((((((....))))))..))))))((((.....)))).))))((......))))))(((.....)))))..))))))))....... ( -50.80)
>DroVir_CAF1 41629 120 + 1
AGCGGCCGGAAUACUUUGGCAGCUCCGUGGAGCUGGCCAUGAAGCGUGCCUUUCUUGACUUUGACCGCGAGAUGCUGCACAACGGCAGCUGGGGCGAACAGAUGGCCGGCUCGACGGCCA
(((.((((((....)))))).)))((((.(((((((((((....(((.((..(((((.(.......)))))).(((((......))))).)).))).....))))))))))).))))... ( -57.60)
>DroSec_CAF1 12175 120 + 1
AGCGGCCGGAGUACCGGGACAAUAGCGUGGAGGUGGCCUUGAAGAAGGCCUUCCUCGACUUCGAUCGGGAGAUGCUGCACAAUGGCUCCGCCGAUGAGCAAACGGCCGGCUGUACUGCCA
.((((((((....(((.......(((((.((((.((((((....))))))..)))).))....(((....))))))((.((.((((...)))).)).))...)))))))))))....... ( -50.30)
>DroEre_CAF1 12432 120 + 1
AGAGGCCGGAGUAUCGGGACAAUAGCGUGGCGUUGGCCCUGAAGAGGGCCUUCCUCGACUUCGAUCGCGAGAUGCUGCACAAUGGCACCAUUGGGGAGCAAACGGCCGGCUCCACUGCCG
...(((((.....(((.((....((((.((....((((((....))))))..)).)).))....)).)))..((((.(.(((((....))))).).))))..)))))(((......))). ( -51.50)
>DroYak_CAF1 12842 120 + 1
AGCGGCCGGAGUAUCGGGACAAUGGCGUGGUGCUGGCCCUGAAGAGGGCCUUCCUCGACUUCGAUCGCGAGAUGCUGCACAAUGGCACCAUUGGCGAGCAGACGGCAGGCUCCACUGCCG
.(((..((((((...((((....(((.....)))((((((....)))))).))))..))))))..)))....((((((.(((((....))))))).))))..((((((......)))))) ( -56.40)
>DroMoj_CAF1 29253 120 + 1
AGCGGCCGGAAUACUUCGGCAGCUCCAUCGAAUUGGCCAUGAAGCGCGCCUUCCUCGACUUCGACCGCGAGAUGCUGCACAACGGCGGCUGGGGCGAGCAGAUGGCUGGCUCCACGGCCU
(((.((((((....)))))).)))..........((((....(((.((((....(((....)))..(((......))).....)))))))(((((.(((.....))).)))))..)))). ( -49.20)
>consensus
AGCGGCCGGAGUACCGGGACAAUAGCGUGGAGCUGGCCAUGAAGAGGGCCUUCCUCGACUUCGAUCGCGAGAUGCUGCACAAUGGCACCAUUGGCGAGCAAACGGCCGGCUCCACUGCCA
...(((((..................((.(((..((((((....))))))...))).))((((.((((....(((((.....)))))...))))))))....)))))(((......))). (-29.02 = -30.22 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:36 2006