Locus 2066

Sequence ID 3R_DroMel_CAF1
Location 5,876,743 – 5,876,863
Length 120
Max. P 0.542089
window3375

overview

Window 5

Location 5,876,743 – 5,876,863
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.56
Mean single sequence MFE -33.50
Consensus MFE -22.29
Energy contribution -22.88
Covariance contribution 0.59
Combinations/Pair 1.36
Mean z-score -1.33
Structure conservation index 0.67
SVM decision value 0.02
SVM RNA-class probability 0.542089
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5876743 120 + 27905053
AUCCACGAGACAAACACCGUGUACCGGGUGAUAUCCCAUGCCAUCGGCUACAGCGGCGAGCCGUCCACAAAGUUUAGCUGGUUCCCCGGCUAUCAGUGGCACAUUAUUCUGUGCAAGUUC
...((((.(((...(.(((((((..(((......)))..(((...))))))).))).)....))))........(((((((....)))))))...)))(((((......)))))...... ( -34.80)
>DroVir_CAF1 577 120 + 1
AUCCACGAGACCAAUACGGUCUAUCGUGUCAUUGCACAUGCCAUUGGUUAUAGUGGUGAGCCAUCCACCGAGUUUAGUUGGUUUCCCGGCUACCAGUGGCAUAUAAUUAUCUGCAAGUUU
...(((((((((.....))))..)))))...(((((.((((((((((......(((((.......)))))....(((((((....))))))))))))))))).........))))).... ( -40.40)
>DroGri_CAF1 580 120 + 1
AUACACGAGACAAAUACGGUUUAUCGAAUAAUAGCACAUGCCGUUGGCUAUAGCGGUGAGCCAUCCACCGAGUUCAGUUGGUUUCCCGGCUAUCAGUGGCACAUCAUUAUAUGCAAGUUU
.......((((......(((((((((....(((((.((......)))))))..)))))))))..((((.((....((((((....)))))).)).)))).................)))) ( -31.60)
>DroWil_CAF1 475 120 + 1
AUUCAUGAGACGAAUACAGUUUAUCGUGUGAUGACCCAUGCCAUUGGUUAUAGUGGAGAGCCCACCACAGAAUUUAGUUGGUUUCCUGGCUAUCAGUGGCAUAUUAUUCUAUGUAAAUUU
..((((.(.((((..........)))).).))))...((((((((((.....((((........))))......((((..(....)..)))))))))))))).................. ( -31.40)
>DroMoj_CAF1 569 120 + 1
AUACAUGAGACAAACACAGUGUAUAGGGUCAUCGCGCAUGCAAUUGGUUAUAGCGGAGAGCCAUCCACCGAGUUUAGUUGGUUCCCCGGCUACCAGUGGCAUAUUAUUAUAUGCAAGUUU
.......((((...(((.(((.((.((.((..(((....((.....))....)))..)).)))).)))......(((((((....)))))))...)))((((((....))))))..)))) ( -31.00)
>DroAna_CAF1 565 120 + 1
AUACACGAAACUAACACCGUCUACCGCGUGAUGUCGCAUGCCAUCGGCUACAGCGGUGAACCAUCCACCAAAUUCAGCUGGUUCCCCGGCUACCAGUGGCAUAUUAUCCUUUGUAAAUUC
....(((((................(((......)))(((((((.((.......((((.......))))......((((((....)))))).)).))))))).......)))))...... ( -31.80)
>consensus
AUACACGAGACAAACACAGUCUAUCGGGUGAUAGCACAUGCCAUUGGCUAUAGCGGUGAGCCAUCCACCGAGUUUAGUUGGUUCCCCGGCUACCAGUGGCAUAUUAUUAUAUGCAAGUUU
.........................(((......)))((((((((((...((((((.((((((...............)))))).)).)))))))))))))).................. (-22.29 = -22.88 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:28 2006