Locus 7094

Sequence ID 3R_DroMel_CAF1
Location 18,712,519 – 18,712,620
Length 101
Max. P 0.529466
window11475

overview

Window 5

Location 18,712,519 – 18,712,620
Length 101
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 74.74
Mean single sequence MFE -26.30
Consensus MFE -15.80
Energy contribution -15.88
Covariance contribution 0.09
Combinations/Pair 1.12
Mean z-score -1.30
Structure conservation index 0.60
SVM decision value -0.01
SVM RNA-class probability 0.529466
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18712519 101 + 27905053
AUGAAGUGGUG-GCGUGCGCCGAGGACUUCCAGAUUGUCGAGUGGUCUUCAAA--------AGCGAAAGCU-GCACUGGAAAAAAUCGUUGCUAAAACGGUAUUAAUAAUA
....((((..(-((....)))(((((((....(.....)....)))))))...--------(((....)))-.)))).......((((((.....)))))).......... ( -27.60)
>DroSec_CAF1 146351 101 + 1
AUGAAGUGGCG-GCGUGCGCCGAGGACUUCCAGAUUGUCGAGUGGUCUUCAAA--------AGCGAAAGCU-GCACUGGAAAAAAUCGUUGUUAAAAGGGUAUUAAUGAUA
..(((((..((-((....))))...)))))..((((.((.(((((....)...--------(((....)))-.)))).))...))))((..((((.......))))..)). ( -28.20)
>DroSim_CAF1 137980 101 + 1
AUGAAGUGGCG-GCGUGCGCCGAGGACUUCCAGAUUGUCGAGUGGUCUUCAAA--------AGCGAAAGCU-GCACUCGAAAAAAUCGUUGUUAAAAGGGUAUUAUUGAUU
..(((((..((-((....))))...)))))..((((.((((((((....)...--------(((....)))-.)))))))...))))........................ ( -30.10)
>DroEre_CAF1 143804 90 + 1
AUGAAGUGGCG-GCGUGCGCCGAGGACUUCCAGAUUGUCGAGUGGUCUUCAAA--------AGCGAAAGCU-GCACUGGAAAAAACUGC-----------UAUUUAUGACC
...((((((((-(.((((...(((((((....(.....)....)))))))...--------(((....)))-))))(....)...))))-----------)))))...... ( -28.50)
>DroYak_CAF1 141934 87 + 1
AUGAAGUGGCG-GCGUGCGCCGAGGA-UUCCAGAUUGUCGAGUGGUCUUCAAA--------AGCGAAAGCU-GCACUGGGAAAAAA--C-----------UUUAUAAAAUG
(((((((..((-((....))))....-((((((.(((..((....))..))).--------(((....)))-...))))))....)--)-----------)))))...... ( -25.20)
>DroAna_CAF1 130728 95 + 1
AUGAAGUGCCGAGCGUGUACCGAGGACUGCAAGCUGGUCGAGUGCUCUUUAAACAACUCCAAACAACAGAUCACACUCGGGAAAAUAUUUGCAAG----------------
........(((((.(((.......((((.......))))((((............))))............))).)))))...............---------------- ( -18.20)
>consensus
AUGAAGUGGCG_GCGUGCGCCGAGGACUUCCAGAUUGUCGAGUGGUCUUCAAA________AGCGAAAGCU_GCACUGGAAAAAAUCGUUG_UAA_____UAUUAAUGAUA
..............((((...(((((((.(..(.....)..).)))))))...........(((....))).))))................................... (-15.80 = -15.88 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:13 2006