Locus 3235

Sequence ID 3L_DroMel_CAF1
Location 9,470,503 – 9,470,623
Length 120
Max. P 0.847939
window5033

overview

Window 3

Location 9,470,503 – 9,470,623
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.56
Mean single sequence MFE -39.30
Consensus MFE -16.00
Energy contribution -16.73
Covariance contribution 0.73
Combinations/Pair 1.30
Mean z-score -2.30
Structure conservation index 0.41
SVM decision value 0.78
SVM RNA-class probability 0.847939
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9470503 120 + 23771897
AACGGCACCAGCAUUAUGCAAAUGAGCAUGCGCAGCGACACUGCCGUUCCCGUCCAAUAGGAAAUCAACUGCUCAAAGUUCGAGGCCACAAUAACCGUGUACACCGAGCAGGUGCCAAAG
...((((((.((.....))...((((((.(.((((.....)))))(((....(((....)))....)))))))))..(((((.(..(((.......)))..)..))))).)))))).... ( -39.20)
>DroVir_CAF1 8059 120 + 1
AAUGGCACGAGCAUUAUGCAAAUGAUGACACGCGACUCGAUUUCACAAUCAAACCAAUGCUCAAGCACCUGCUCAAAGUUCUUGGCCACAAUAACUGUAUACACAGAGCAGGUGCCAAAG
..((((..(((((((.(((............)))....((((....)))).....)))))))....((((((((..((((.(((....))).))))((....)).))))))))))))... ( -35.30)
>DroPse_CAF1 6473 120 + 1
AGUGGCACCAACAGGGAGCAGAUGAGCAGACGCGAAGACACUUCCGUUCCCGUCCAGUGCUCGAUCAACUGUUCGAAAUUCUUAGCCACAAUCACGGUGUACACCGAACAGGUGCCGAAG
.(((((.((....))((((((.((((((((((.((((.......).))).))))...)))))).....))))))..........))))).....(((....((((.....)))))))... ( -37.20)
>DroEre_CAF1 8538 120 + 1
AAGGGCACCAGCAUUAUGCAAAUGAGCAUGCGCAGCGACACCGGUGAUCCCGUCCAGUGGGAAAUCAACUGCUCAAAGUUCGAGGCCACAAUUACCGUGUACACCGAGCAGGUGCCAAAG
...((((((.((.....))...((((((....((.((....)).)).(((((.....))))).......))))))..(((((.(..(((.......)))..)..))))).)))))).... ( -39.50)
>DroMoj_CAF1 8228 120 + 1
AAUGGCACGAGCAGUAUACAGAUGAUUACACGCGGCUCAAUGUCGCGUCCCGUCCAAUGCACCAGCACCUGCUCAAAGUUCUUGGCCACGAUGACCGUGUAGACGGAACAGGUGCCAAAA
..((((((((((((......((((.....(((((((.....)))))))..))))...(((....))).))))))...(((((....((((.....)))).....)))))..))))))... ( -44.00)
>DroPer_CAF1 8207 120 + 1
AGUGGCACCAACAGGGAGCAGAUGAGCAGACGCGAGGACACUUCCGUUCCCGUCCAGUGCUCGAUCAACUGUUCGAAAUUCUUAGCCACAAUCACGGUGUACACCGAACAGGUGCCGAAG
.(((((.((....))((((((.((((((((((.(.((((......)))))))))...)))))).....))))))..........))))).....(((....((((.....)))))))... ( -40.60)
>consensus
AAUGGCACCAGCAGUAUGCAAAUGAGCACACGCGACGACACUUCCGUUCCCGUCCAAUGCUCAAUCAACUGCUCAAAGUUCUUGGCCACAAUAACCGUGUACACCGAACAGGUGCCAAAG
...((((((.............((((((.........................................))))))..(((((....(((.......))).....))))).)))))).... (-16.00 = -16.73 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:40 2006