Locus 2583

Sequence ID 3R_DroMel_CAF1
Location 6,978,669 – 6,978,788
Length 119
Max. P 0.555492
window4213

overview

Window 3

Location 6,978,669 – 6,978,788
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.37
Mean single sequence MFE -28.27
Consensus MFE -18.08
Energy contribution -17.20
Covariance contribution -0.88
Combinations/Pair 1.25
Mean z-score -1.41
Structure conservation index 0.64
SVM decision value 0.04
SVM RNA-class probability 0.555492
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6978669 119 + 27905053
AAAAGGCGUUCGUACAGCGACAUGUGAUCGUUAAAGGGUAGCAUUAUGUGGGGCACGAACGAAGCUGGAGCGGGGGAACCAACCUGAAAA-AGUUAAAAUAUAUUUAGUAUUUCAAAUAA
......(((((((...((..((((((((.((((.....))))))))))))..))))))))).((((....((((........))))....-)))).((((((.....))))))....... ( -28.70)
>DroPse_CAF1 48794 108 + 1
ACCAGGCGCUCAUACAGCGACAUGUGAUCGUUGAAGGGCAACAUUAUGUGGGGCACAAACGAAGCGGGAGCUGGGGAGCCCACCUAAAGG-AGGAAACAGAAAGUUAGC-----------
.((.((.((((...((((..(.(((..(((((.....((..(((...)))..))...))))).))))..))))..)))))).((....))-.))...............----------- ( -33.10)
>DroEre_CAF1 17971 104 + 1
AAAAGCCGUUCGUACAGCGACAUGUGAUCGUUGAAGGGUAGCAUUAUGUGGGGCACAAACGAAGCAGGAGCGGGAGAACCAACCUGAAAA--GGAAAAAUGUAUUC--------------
.....((((((.....((..((((((((.((((.....))))))))))))..)).....(......))))))).........(((....)--))............-------------- ( -24.00)
>DroAna_CAF1 14624 111 + 1
AUAAAACGCUCGUAGAGUGACAUGUGAUCAUUGAAUGGCAACAUUAUGUGAGGAACAAAAGAAGCUGGAGCUGGAGAGCCAACCUGGGAAAAGACAGAGUAUGUG---------AAAAAA
.......((((.(((.......(((..((((..((((....))))..))))...))).......)))))))(((....)))(((((........))).)).....---------...... ( -22.44)
>DroPer_CAF1 49582 108 + 1
ACCAGGCGCUCAUACAGCGACAUGUGAUCGUUGAAGGGCAACAUUAUGUGGGGCACAAACGAAGCGGGAGCUGGGGAGCCCACCUAAAGG-AGGAAACAGAAAGUUAGC-----------
.((.((.((((...((((..(.(((..(((((.....((..(((...)))..))...))))).))))..))))..)))))).((....))-.))...............----------- ( -33.10)
>consensus
AAAAGGCGCUCGUACAGCGACAUGUGAUCGUUGAAGGGCAACAUUAUGUGGGGCACAAACGAAGCGGGAGCUGGGGAGCCAACCUGAAAA_AGGAAAAAUAUAUUUAG____________
.......((((.....((..((((((((.((((.....))))))))))))..)).........((....))....))))......................................... (-18.08 = -17.20 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:52 2006