Locus 1160

Sequence ID 3R_DroMel_CAF1
Location 3,508,180 – 3,508,270
Length 90
Max. P 0.583082
window1906

overview

Window 6

Location 3,508,180 – 3,508,270
Length 90
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.92
Mean single sequence MFE -27.50
Consensus MFE -20.30
Energy contribution -20.33
Covariance contribution 0.03
Combinations/Pair 1.21
Mean z-score -1.13
Structure conservation index 0.74
SVM decision value 0.10
SVM RNA-class probability 0.583082
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3508180 90 + 27905053
UCGGGCAUUAACGCCAGUUAGUGGUCCGCAUCCGUGUCUAUAUG--------U-----GCACGGCUAUA------UGUAUAUGAGGCUCGAGUUGUUUCGCUUUGCUUG
..((((((((((....)))))).))))(((..((.((((.((((--------(-----(((........------)))))))))))).))(((......))).)))... ( -24.90)
>DroSec_CAF1 105592 90 + 1
UCGGGCAUUAACGCCAGUUAGUGGUCCGCAUCCGUGUCUAUAUG--------U-----GCACGGCUAUA------UGUAUAUGAGGCUCGAGUUGUUUCGCUUUGCUUG
..((((((((((....)))))).))))(((..((.((((.((((--------(-----(((........------)))))))))))).))(((......))).)))... ( -24.90)
>DroSim_CAF1 130376 90 + 1
UCGGGCAUUAACGCCAGUUAGUGGUCCGCAUCCGUGUCUAUAUG--------U-----GCACGGCUAUA------UGUAUAUGAGGCUCGAGUUGUUUCGCUUUGCUUG
..((((((((((....)))))).))))(((..((.((((.((((--------(-----(((........------)))))))))))).))(((......))).)))... ( -24.90)
>DroEre_CAF1 115472 100 + 1
UCGGGCAUUAACGCCAGUUAGUGGUCCGCAUCCGUGUCUAUAUGUCGGUAUGGCUAUGGCACGGCUAUG---------AUAUGGGGCUCGAGUUGUUUCGCUUUGCUUG
..((((((((((....)))))).))))((.((((((((.(((.((((.....((....)).))))))))---------))))))))).(((((.(.....)...))))) ( -31.40)
>DroYak_CAF1 171662 104 + 1
UCGGGCAUUAACGCCAGUUAGUGGUCCGCAUCCGUGCCUAUAUAUCUAUAUGU-----GCACGGCUAUAUAUGUAUGUAUAUGAGGCUCGAGUUGUUUCGCCUUGCUUG
..((((((((((....)))))).))))(((.((((((.(((((....))))).-----)))))).(((((((....)))))))((((..(((....))))))))))... ( -32.30)
>DroAna_CAF1 99818 78 + 1
GCGGGCAUUAACGCCAGUUAGUGUUCCGCAUCCGAGCUUGUAUU--------U-----U----GC--------------UGGAAGACAUGAGUUGUUUUGCUUUGUUUG
((((((((((((....))))))).))))).(((.(((.......--------.-----.----))--------------))))(((((.((((......))))))))). ( -26.60)
>consensus
UCGGGCAUUAACGCCAGUUAGUGGUCCGCAUCCGUGUCUAUAUG________U_____GCACGGCUAUA______UGUAUAUGAGGCUCGAGUUGUUUCGCUUUGCUUG
..((((((((((....))))))).)))(((.((((((.....................))))))..................(((((.......)))))....)))... (-20.30 = -20.33 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:32 2006