Locus 1434

Sequence ID 2R_DroMel_CAF1
Location 5,500,869 – 5,500,961
Length 92
Max. P 0.637190
window2452

overview

Window 2

Location 5,500,869 – 5,500,961
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.15
Mean single sequence MFE -27.96
Consensus MFE -13.23
Energy contribution -14.31
Covariance contribution 1.08
Combinations/Pair 1.15
Mean z-score -1.73
Structure conservation index 0.47
SVM decision value 0.21
SVM RNA-class probability 0.637190
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5500869 92 - 20766785
CGGACAUUCAUCGAUUGGGCUUAGAAAAUAUCGAUUACACGCUG-------CGAUGGUUUGUAAAAGAAAUUGAAGUGGCAAC---------------------GCUAAAGGAAAGAGUG
....(((((.((((((...(((.((.....))..(((((.(((.-------....))).)))))))).))))))((((....)---------------------)))........))))) ( -19.60)
>DroSec_CAF1 25548 92 - 1
CAGACAUUCAUCGAUUGGGCUUAGAAAACAUCGAUUGCACGCUG-------CGAUGUUUUGUAAAAGAAAUUGAUGUGGCAAC---------------------GCUAAAGGAAAGAGUG
....((((((((((((....(((.(((((((((...(....)..-------))))))))).)))....)))))))(((....)---------------------)).........))))) ( -26.60)
>DroSim_CAF1 2697 92 - 1
CAGACAUUCAUCGAUUGGGCUUAGAAAACAUCGAUUGCACGCUG-------CGAUGUUUUGUAAAAGAAAUUGAAGUGGCAAC---------------------GCCAAAGGAAAGAGUG
....(((((.((((((....(((.(((((((((...(....)..-------))))))))).)))....)))))).(((....)---------------------)).........))))) ( -25.40)
>DroEre_CAF1 2626 118 - 1
GAGACAUUAAUCGAC--GAUUUAGAAAACAUCGAUUGCUCGCUGCAGCUGUCGAUGGUUUCUUCAUCAAUUUGGAGUGGCAGCGCAGUGUGAUUGGCUAAUCGCGCUAAAUGAAAGGGUG
....((((..((...--(((..(((((.(((((((.(((......))).))))))).)))))..))).((((((.((((.(((.((((...)))))))..)))).))))))))...)))) ( -32.20)
>DroYak_CAF1 2331 119 - 1
UAGACAUUCAUCGAUUGGGCUUAGAAAACAUCGAUUGCUCGGGGCAACUGUCGAUGUUUUCUAAAUCAAAAUGAAGUGGCAGCCCUGAGUGAU-GGCUAAUCGCGCUAAACAUAAAGGUG
........((((....((((((((((((((((((((((.....)))...))))))))))))))).((.....)).......))))...(((((-.....)))))............)))) ( -36.00)
>consensus
CAGACAUUCAUCGAUUGGGCUUAGAAAACAUCGAUUGCACGCUG_______CGAUGUUUUGUAAAAGAAAUUGAAGUGGCAAC_____________________GCUAAAGGAAAGAGUG
....(((((.((((((....(((.(((((((((..................))))))))).)))....))))))..((((........................)))).......))))) (-13.23 = -14.31 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:46 2006