Locus 4780

Sequence ID 2L_DroMel_CAF1
Location 13,651,502 – 13,651,604
Length 102
Max. P 0.541730
window7567

overview

Window 7

Location 13,651,502 – 13,651,604
Length 102
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.40
Mean single sequence MFE -20.70
Consensus MFE -11.85
Energy contribution -12.35
Covariance contribution 0.50
Combinations/Pair 1.12
Mean z-score -1.89
Structure conservation index 0.57
SVM decision value 0.02
SVM RNA-class probability 0.541730
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13651502 102 - 22407834
UGGC---UAGA---AAAACAGCAGUUUGCUUUAUUUAAAAAUCCCAUGGCAACAACUUUGC------------CAAAUCAGUUGCGAACUGACCAAAUAAAAACCGCACAACUUGCACCA
....---....---......((((((((((((((((..........((((((.....))))------------))..(((((.....)))))..)))))))....))).))).))).... ( -20.00)
>DroPse_CAF1 20062 117 - 1
AAGCGACAAGAAAGAAAAAUGUAGUUUACUUUAUUUAAAAAACCCGUGGCAACAACUUUGCCCUGCCGCAGACCAAAUCAGCUGCAAGCUGACCAAAUAAAAACCCCGCAACUCGC---A
..((((..........(((((.((....)).))))).........((((.......(((((......))))).....(((((.....))))).............))))...))))---. ( -21.40)
>DroSim_CAF1 16733 102 - 1
UGGC---UAGA---AAAACAGCAGUUUGCUUUAUUUAAAAAUCCCAUGGCAACAACUUUGC------------CAAAUCAGUUGCGAACUGACCAAAUAAAAACCGCACAACUUGCACCA
....---....---......((((((((((((((((..........((((((.....))))------------))..(((((.....)))))..)))))))....))).))).))).... ( -20.00)
>DroPer_CAF1 20387 117 - 1
AAGCGACAAGAAAGAAAAAUGUAGUUUACUUUAUUUAAAAAACCCGUGGCAACAACUUUGCCCUGCCGCAGACCAAAUCAGCUGCAAGCUGACCAAAUAAAAACCCCGCAACUCGC---A
..((((..........(((((.((....)).))))).........((((.......(((((......))))).....(((((.....))))).............))))...))))---. ( -21.40)
>consensus
AAGC___AAGA___AAAAAAGCAGUUUACUUUAUUUAAAAAACCCAUGGCAACAACUUUGC____________CAAAUCAGCUGCAAACUGACCAAAUAAAAACCCCACAACUCGC___A
....................((((((((((((((((...........(((((.....)))))...............(((((.....)))))..)))))))....))).)))).)).... (-11.85 = -12.35 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:11 2006