Locus 2180

Sequence ID 3R_DroMel_CAF1
Location 6,238,599 – 6,238,712
Length 113
Max. P 0.684917
window3548

overview

Window 8

Location 6,238,599 – 6,238,712
Length 113
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 76.92
Mean single sequence MFE -35.60
Consensus MFE -19.15
Energy contribution -21.63
Covariance contribution 2.48
Combinations/Pair 1.19
Mean z-score -1.84
Structure conservation index 0.54
SVM decision value 0.31
SVM RNA-class probability 0.684917
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6238599 113 + 27905053
CAGUUCGGAUAGGAGCUGGCCAGCCUUCGCUGUCUAUCGAUAGCCAGCGAUAGUUGCGUAUAUCGCCAGUCGGAUCGACAGUGCAUUUUAUACAUUAUAUAUGGUGCAUU-AUA
((((((......))))))((((((..((((((.(((....))).))))))..)))).)).........((((...))))(((((((..((((.....))))..)))))))-... ( -36.50)
>DroSec_CAF1 1517 99 + 1
CGGUUCGGAUUGGAGCUGGCCAGCCAUCGCUGUCUAUCGAUAGCCAGCGAUGGUUGCGUAUAUCGCCGGUCGGGUCGACAGUGCAUUUUAUACAUU---------------AUA
......(.((((((.(((((((((((((((((.(((....))).)))))))))))(((.....))).)))))).))..)))).)............---------------... ( -38.60)
>DroSim_CAF1 4377 113 + 1
CGGUUCGGAUUGGAGCUGGCCAACCUUCGCUGUCUAUCGAUAGCCAGCGAUGGUUGCGUAUAUCGCCGGUCGGGUCGACAGUGCAUUUUAUACAUUAUAUACAGUGCAUU-AUA
(((..((.(((((.....(((((((.((((((.(((....))).)))))).))))).))......)))))))..)))..((((((((.((((.....)))).))))))))-... ( -42.20)
>DroEre_CAF1 6002 104 + 1
CGAUUCGGCUUGAAGCUGGCCAGCCUGCGGUGUAUAUCGAUAGCCA-CGAUGGUAACGUAUAUCGCCAGUCGGAUCGGCAGUGCAUUAU-UAC--------CCGCGCACUCUUA
((((((((((....((.((....)).))((((.((((((...(((.-....)))..)).))))))))))))))))))..(((((.....-...--------....))))).... ( -34.60)
>DroYak_CAF1 4184 97 + 1
CGAUUCGGAUUGGAGCUGGCCAGCUUUCGGUGACUAUCGAUAG---------GUAGCGUAUAUCGCCAGUCGAAGCAAAAGUGCAUUAUAUAC--------CCGCGCACUUUUA
.(.(((((...((((((....)))))).((((((((((....)---------))))......)))))..))))).)((((((((.........--------....)))))))). ( -26.12)
>consensus
CGGUUCGGAUUGGAGCUGGCCAGCCUUCGCUGUCUAUCGAUAGCCAGCGAUGGUUGCGUAUAUCGCCAGUCGGAUCGACAGUGCAUUUUAUACAUU_____CCGCGCACU_AUA
(((((((.......(((((((((((.((((((.(((....))).)))))).)))))........)))))))))))))..................................... (-19.15 = -21.63 +   2.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:17 2006