Locus 1090

Sequence ID 3L_DroMel_CAF1
Location 3,190,914 – 3,191,034
Length 120
Max. P 0.588233
window1687

overview

Window 7

Location 3,190,914 – 3,191,034
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.89
Mean single sequence MFE -42.78
Consensus MFE -25.73
Energy contribution -27.23
Covariance contribution 1.50
Combinations/Pair 1.29
Mean z-score -1.63
Structure conservation index 0.60
SVM decision value 0.11
SVM RNA-class probability 0.588233
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3190914 120 + 23771897
UGAUAUGGUUCCGAUAUUGGUGCCCGUCAGGGAUUGGUUCAGCUUCAGCAAAGCUGCAUCCAUGUUCAUUUUCUUCGAGGUGAACUUCGGAGCCACAUGAAUGGAACUGACGGAGCGAGU
.((((((....).)))))..((((((((((....(((..((((((.....))))))...))).((((((...((((((((....))))))))....))))))....))))))).)))... ( -41.70)
>DroVir_CAF1 10778 120 + 1
GGCAAUCGUGCCAAUGUUUGUGCCCGUCAUGGUCGCAUUCAGCUUCAGCAGCGCCGCAUCCAUGUUCAUGGAUUUGGUUGUGAACCUGGGCGCCACGCCGGCGUAUGUCACAGUGCGUAC
((((....))))...((..(((((((....(((((((....(((.....)))((((.((((((....)))))).)))))))).)))))))))).))....((((((......)))))).. ( -41.80)
>DroSim_CAF1 9135 120 + 1
UGAUAUGGUUCCGAUAUUGGUGCCCGUCAGGGAUUGGUUCAGCUUGAGCAAAGCGGCAUCCAUGUUCAUUUUCUUCGAUGUGAACUUCGGUGCCACAUGAAUUGAACUGACGGAGCGAGU
.((((((....).)))))..((((((((((...(..(((((((((.....))))((((((...((((((..........))))))...))))))...)))))..).))))))).)))... ( -43.30)
>DroEre_CAF1 9156 120 + 1
UGAUAUGGUUCCGAUAUUUGUGCCCGUCAGGGAUUGGUUCAGCUUGAGCAAAGCGGCGUCCAUGUUCAUUUUCUUCGAGGUGAACUUGGGCGCCACGUGAAUGGAACUGACGGAGCGAGU
...............((((((..(((((((...((.(((((((((.....))))((((((((.(((((((((....))))))))).))))))))...))))).)).))))))).)))))) ( -51.50)
>DroYak_CAF1 9143 120 + 1
GGAAAUGGUUGCGAUAUUUGUGCCCGUCAGGGUUUGGUUCAGCUUGAGCAAAGCGGCAUCCAUGUUCAUUUUCUUCGUGGUGAAUUUGGGCGCCACGUGAAUGGAAGUCACGGCGCGAGU
...............(((((((((.((..((.(((.(((((((((.....))))(((..(((.(((((((........))))))).)))..)))...))))).))).))))))))))))) ( -40.70)
>DroAna_CAF1 9260 120 + 1
CGAGAUGGUGCCUAUAUUGGUGCCCGUCAUGGAACGAUUCAACUUCAACAGUGCCGCGUCCAUGUUCAUCUUCUUGGUGGUGAACUUGGGAGCCACAUGAACGGAGGUGACAGAGCUGGU
(.((..((..((......))..)).(((.((((....))))(((((....(((..((..(((.(((((((........))))))).)))..))..))).....))))))))....)).). ( -37.70)
>consensus
UGAUAUGGUUCCGAUAUUGGUGCCCGUCAGGGAUUGGUUCAGCUUCAGCAAAGCGGCAUCCAUGUUCAUUUUCUUCGAGGUGAACUUGGGCGCCACAUGAAUGGAACUGACGGAGCGAGU
.....................(((((((((...((.(((((((((.....)))).((.((((.(((((((((....))))))))).)))).))....))))).)).))))))).)).... (-25.73 = -27.23 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:46 2006