Locus 4373

Sequence ID 2L_DroMel_CAF1
Location 12,596,477 – 12,596,571
Length 94
Max. P 0.877982
window6887

overview

Window 7

Location 12,596,477 – 12,596,571
Length 94
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 77.21
Mean single sequence MFE -20.75
Consensus MFE -12.80
Energy contribution -12.97
Covariance contribution 0.17
Combinations/Pair 1.25
Mean z-score -1.80
Structure conservation index 0.62
SVM decision value 0.90
SVM RNA-class probability 0.877982
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12596477 94 + 22407834
GAUCUUUCGGAGGCCCCUGACGCCUUUUUUUUUUUGGUUUCAUUCAAAGGCCUUUGAUGGCUUUUGAUUAUUAUUGAAAGUGAUAAAUGGAGAU
.((((((((((((((..(((.(((...........))).)))......))))))))((.(((((..((....))..))))).))....)))))) ( -25.70)
>DroSec_CAF1 163499 90 + 1
GAUCUUUCGGAGGCCCCGGACGCCUUU----UUUCGGUUUCAUUCAACGGCCUUUGAUGGCUUUUGAUUAUUAUUGAAAGUGAUAAAUGGAGAU
.((((((((((((((...((.(((...----....))).)).......))))))))((.(((((..((....))..))))).))....)))))) ( -25.30)
>DroEre_CAF1 161517 73 + 1
GAUC-----------------GCCUU----UUUUCGGUUUCAUUCAGCGGCCUUUGAUGGCUUUUGAUUCUUAUUGAAAGUGAUAAAUGGAGAU
.(((-----------------.((.(----((.(((.(((((.((((.((((......)))).)))).......))))).))).))).)).))) ( -20.00)
>DroYak_CAF1 167056 93 + 1
GAUCUUUCGGAGGCCCCUGACGCCUUUUU-UUUUCGGUUUCAUUCAACGGCCUUUGAUGGCUUUUGAUUAUUAUUGAAAGUGAUAAAUGGAGAU
.((((((((((((((..(((.(((.....-.....))).)))......))))))))((.(((((..((....))..))))).))....)))))) ( -25.20)
>DroAna_CAF1 162525 79 + 1
GGAGAG---------UCGGACGCCUU-----UUUCGGUUUCAUUCAUC-GCUUUUGAAGGCUUUUGAUUAUUAUUGAAAAUGAUAAAUGAAGAU
.(((((---------((.((.(((..-----....))).)).((((..-.....)))))))))))..(((((((.....)))))))........ ( -14.60)
>DroPer_CAF1 212513 71 + 1
----------------------CCUUCGUUUUUUCGGUCUCAUUCAGC-GCUUUUGAUGGCUUUUGAUUAUUAUUGAAAAUGAUAAAUGAAGAU
----------------------.(((((((((((((((.....((((.-(((......)))..)))).....))))))).....)))))))).. ( -13.70)
>consensus
GAUCUU_________CC_GACGCCUUU___UUUUCGGUUUCAUUCAACGGCCUUUGAUGGCUUUUGAUUAUUAUUGAAAGUGAUAAAUGGAGAU
.......................((((......(((.(((((.((((.((((......)))).)))).......))))).))).....)))).. (-12.80 = -12.97 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:14 2006