Locus 1852

Sequence ID X_DroMel_CAF1
Location 5,106,127 – 5,106,231
Length 104
Max. P 0.500000
window3011

overview

Window 1

Location 5,106,127 – 5,106,231
Length 104
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 80.11
Mean single sequence MFE -22.60
Consensus MFE -12.40
Energy contribution -14.32
Covariance contribution 1.92
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.55
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5106127 104 + 22224390
UAGCGCCUGCGUUUUUCCCACUUUU---------CCCGCAUUUCCCACUGGCACGGCGA-UCCCCCUUUUCGCCGCCCCAUCAACAUCC---UCAUCAUCGCAUGGGAAAUUUGACU
.((((....))))............---------..((.((((((((.(((..((((((-.........))))))..))).........---.(......)..)))))))).))... ( -22.70)
>DroSec_CAF1 17349 98 + 1
CAGCGCCUGCGUUUUUCCCACUUUUC------------------CCACUGGCACGGCGA-UCCCCCUUUUCGCCGCCCCAUCAACAUCCUCCUCAUCAUCGCAUGGGGAAUUUGACU
.((((....)))).............------------------....(((..((((((-.........))))))..)))....((...(((((((......)))))))...))... ( -23.60)
>DroSim_CAF1 18834 116 + 1
UAGCGCCUGCGUUUUUCCCACUUUUCCCACUUUUCCCGCAUUUCCCACUGGCACGGCGA-UCCCCCUUUUCGCCGCCCCAUCAACAUCCUCCUCAUCAUCGCAUGGGGAAUUUGACU
.((((....))))...................................(((..((((((-.........))))))..)))....((...(((((((......)))))))...))... ( -23.50)
>DroEre_CAF1 17130 104 + 1
UAGCGCUUGCGUUUUUCCCACUUUU---------CCCGCAUUUCCCACUGGCACGGCGA-UCCCCCCUUUCGCCGCCCCAUCAACAUCC---UCAUCAUCGCAUGGGGAAUUUGACU
.......((((..............---------..))))........(((..((((((-.........))))))..)))((((..(((---((((......)))))))..)))).. ( -25.19)
>DroYak_CAF1 17458 104 + 1
UAGCGCUUGCGUUUUUCCCACUUUU---------CCCGCAUUUCGCACUGGCACGACGA-UCCCCCUUUUCGACGCCCCAUCAACAUCC---UCAUCAUCGCAUGGGGAAUUUGACU
..(((..((((..............---------..))))...)))..(((..((.(((-.........))).))..)))((((..(((---((((......)))))))..)))).. ( -22.79)
>DroAna_CAF1 26983 103 + 1
UAGCGCCUGCGUUUUUCCCGCUCUAUCAAA---UGCCACGCCCCUUGCUAGCACC--UACUGCCCCUUUG------CCCACGAACAUCC---UCAUCAUCGCUGAGGGUAUUUGACU
(((((...((((.......((.........---.)).))))....)))))(((..--...))).......------....((((.((((---(((.......))))))).))))... ( -17.80)
>consensus
UAGCGCCUGCGUUUUUCCCACUUUU_________CCCGCAUUUCCCACUGGCACGGCGA_UCCCCCUUUUCGCCGCCCCAUCAACAUCC___UCAUCAUCGCAUGGGGAAUUUGACU
..((....))(((.(((((.............................(((..((((((..........))))))..))).............(((......))))))))...))). (-12.40 = -14.32 +   1.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:14 2006