Locus 4622

Sequence ID 2L_DroMel_CAF1
Location 13,220,942 – 13,221,062
Length 120
Max. P 0.561762
window7301

overview

Window 1

Location 13,220,942 – 13,221,062
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.06
Mean single sequence MFE -42.15
Consensus MFE -27.50
Energy contribution -26.75
Covariance contribution -0.75
Combinations/Pair 1.33
Mean z-score -1.65
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.561762
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13220942 120 + 22407834
GGGAGCUAGCGAUGAAGCGUCUACGGUCGCGACUUGUGCAACAGCAGUUGGAGAGCGUUGAGGCUAGCAAAAUGGCCACCAAGAAGGCGCAACAGGGUAGUCUCAAUCGCAAUGAGAAGA
.....(((((......(((.(....).)))......(((....))))))))...((((((((((((.(....(((((........))).))....).))))))))).))).......... ( -38.10)
>DroPse_CAF1 16727 120 + 1
GCGAGCUGGCCCUGAAGCGUCUUCAGGCGCGGCUUGUGCAGCAGCAGCUGGAAAGCUCAGAAGCCAGCAAGCAGGCUACAAAGAAGGCGCAGCAGGGCAGCCUUAACAGGAACGAAAAGA
....((((.(((((..((((((((.(((((.((....)).)).(.((((....)))))....)))(((......))).....))))))))..)))))))))................... ( -49.20)
>DroEre_CAF1 3876 120 + 1
GGGAGCUGGCCAUGAAGCGUCUGCGGUCGCGACUUGUGCAACAGCAGUUGGAGAGCGCCGAGGCUAGCAAGAUGGCCACCAAGAAGGCGCAACAGGGGAGUCUCAACCGCAAUGAGAAAA
((..(((........)))..))(((((.(.(((((.(.((((....))))....(((((..(((((......)))))........))))).....).))))).).))))).......... ( -39.30)
>DroYak_CAF1 3935 120 + 1
GGGAGCUGGCCAUGAAGCGUCUGCGGUCGCGGCUUGUGCAACAGCAGUUGGAGAGCGUUGAGGCUAACAAGAUGGCCACCAAGAAGGCGCAACAGGGAAGUCUCAACCGAAAUGAGAAGA
(((((((..((.((..((((((..(((.((.((((((((..((((.(((....)))))))..))..))))).).)).)))....))))))..)).)).)).)))..))............ ( -37.20)
>DroAna_CAF1 3873 120 + 1
GGGAGUUAGCCAUGAGUCGCCUGCGUUCCCGGUUAGUGCAGCGGCAGCUGGAAAGCGCCGAAGCCAGUACAAAGGCCACUAAGAAGGCGCAACAGGGAAGUCUCAACCGCAAUGAAAAAA
((((.(((....))).)).))(((((((((.(((.((((..((((.(((....)))))))..(((........)))..........))))))).)))))........))))......... ( -38.40)
>DroPer_CAF1 18360 120 + 1
GCGAGCUGGCCCUGAAGCGUCUUCAGGCGCGGCUUGUGCAGCAGCAGCUGGAAAGCUCAGAGGCCAGCAAGCAGGCUACAAAGAAGGCGCAGCAGGGCAGCCUCAACAGGAACGAAAAGA
..((((((.(((((..((((((((.(((((.((....)).)).(.((((....)))))....)))(((......))).....))))))))..)))))))).)))................ ( -50.70)
>consensus
GGGAGCUGGCCAUGAAGCGUCUGCGGUCGCGGCUUGUGCAACAGCAGCUGGAAAGCGCAGAGGCCAGCAAGAAGGCCACCAAGAAGGCGCAACAGGGAAGUCUCAACCGCAAUGAAAAGA
..(((((..((.((..((((((.(....(((.(((...((((....))))..))))))...((((........)))).....).))))))..))))..)).)))................ (-27.50 = -26.75 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:52 2006