Locus 3563

Sequence ID 3R_DroMel_CAF1
Location 9,648,416 – 9,648,525
Length 109
Max. P 0.704052
window5721

overview

Window 1

Location 9,648,416 – 9,648,525
Length 109
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 82.77
Mean single sequence MFE -33.88
Consensus MFE -19.38
Energy contribution -21.88
Covariance contribution 2.50
Combinations/Pair 1.08
Mean z-score -2.29
Structure conservation index 0.57
SVM decision value 0.36
SVM RNA-class probability 0.704052
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9648416 109 + 27905053
UUUCAGCUGAGAGCGGGCAGAUGCACUGCGCGAAAAACGGGAGUCAAAGUUCGAUUUGAUUU----------AUUGAGAGUUAUGUAAAAUCUCAGGCUUCUCAAAUUUGAUUAAAUUU
..((((.(((((((((((....)).))))((.........((((((((......))))))))----------.((((((...........)))))))).)))))...))))........ ( -26.70)
>DroSec_CAF1 41194 118 + 1
UUUCAGCUGAGAGCGGGCAGAUGCACUGCGCGAAAAACGGGGGUCAAAGUUCGAUUUGAUUUCCGUUGUAUUCUUGAGAGUUGUGUAACAGCUCAAGCUGCUCA-AUUUGAUUAAAUUU
..((((.((((((((.((((.....)))).)(((.(((((..((((((......))))))..)))))...)))....((((((.....))))))..))).))))-..))))........ ( -41.50)
>DroSim_CAF1 43661 119 + 1
UUUCAGCUGAGAGCGGCCAGAUGCACUGCGCGAAAAACGGGGGUCAAAGUUCGAUUUGAUUUCCGUUGUGUUCUUGAGAGUUAUGUAAAAUCUCAAGCUGCUCAAAUUUGAUUAAAUUU
..((((.(..(((((((.....((.....))(((.(((((..((((((......))))))..)))))...)))((((((...........)))))))))))))..).))))........ ( -37.90)
>DroYak_CAF1 42775 115 + 1
UUUGAGCUGAGAGCGGGCAGAUGCACUGCGCGAAAAACUGUAGUCAAAGUUUGAUUUAUUUUCCGUAGUAUUAUUGAGAGUUUUUUAUAA-AUCACGCAUUU--GCUUUGAU-AAGUUC
...(((((......((((((((((((((((.(((((.....(((((.....)))))..))))))))))).....(((...((......))-.))).))))))--))))....-.))))) ( -29.40)
>consensus
UUUCAGCUGAGAGCGGGCAGAUGCACUGCGCGAAAAACGGGAGUCAAAGUUCGAUUUGAUUUCCGUUGUAUUAUUGAGAGUUAUGUAAAAUCUCAAGCUGCUCAAAUUUGAUUAAAUUU
...((((((((..((.((((.....)))).))....((((((((((((......)))))))))))).........................)))).))))................... (-19.38 = -21.88 +   2.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:15 2006