Locus 4869

Sequence ID 2R_DroMel_CAF1
Location 15,938,115 – 15,938,221
Length 106
Max. P 0.500000
window7815

overview

Window 5

Location 15,938,115 – 15,938,221
Length 106
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 82.50
Mean single sequence MFE -25.62
Consensus MFE -15.02
Energy contribution -15.43
Covariance contribution 0.42
Combinations/Pair 1.14
Mean z-score -2.07
Structure conservation index 0.59
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15938115 106 + 20766785
CAUUGCCUU-ACAGAGCCAUAAAAAGCUCAACAAGGCGUCUAAAAAUUU-GGCACACUU-UUGACCCCGCUUUGUAUUUCUCUUAAAGAAGAGAGCGAAGCGAAGUUGU
....(((((-...((((........))))...)))))(((.........-)))......-..(((..((((((((...((((((....))))))))))))))..))).. ( -31.20)
>DroSec_CAF1 65519 99 + 1
CAUUGCCUU-ACAGAGCCAUAAAAAGCUCAACAAGGCGUCUGAAAAUUU-GGCACACUU-UAGACCUCACUUUGGAUUUCUCUUAAAGAAGAGAGCAAUGC-----U--
((((((...-...((((........))))..(((((.(((((((.....-.......))-)))))....)))))....((((((....)))))))))))).-----.-- ( -24.50)
>DroSim_CAF1 64841 99 + 1
CAUUGCCUU-ACAGAGCCAUAAAAAGCUCAACAAGGCGUCUGAAAAUUU-GGCACACUU-UUGACCUCACUUUGGAUUUCUCUUAAAGAAGAGAGCGAUGC-----U--
(((((((((-...((((........))))...)))))(((..((.....-((((.....-.)).))....))..)))(((((((....))))))).)))).-----.-- ( -23.10)
>DroEre_CAF1 65318 102 + 1
CAUUGCCUU-ACAGUGCCAUAAAAAGCUCAGCAAGGCGCCCGAAAAUUU-GGCACACUUUUUGAGCCCACUUUGCAUUUCUCUUAACGAAGAGAGCAAAGC-----UGU
(((((....-.))))).........((((((.((((.(((.........-))).).))).)))))).((((((((...((((((....)))))))))))).-----)). ( -28.00)
>DroYak_CAF1 67938 102 + 1
CAUUGCCUU-ACAGCACCAUAAAAAGCUCAAGAAGGCGUCUGAAAAUUU-GGCACACUUUUUGACCGCACUUUGGAUUUCUCUUAACGAAGAGAGCAAAGC-----UGU
.........-(((((.(((......(.(((((((((.(((.........-))).).)))))))).)......)))..(((((((....)))))))....))-----))) ( -26.60)
>DroAna_CAF1 60107 99 + 1
CAUUGCCUUUUCCCAGCCAUAAAAAGCUCAGCAAUGCGUCUGAUAUUUUCGGCCCACAUUUCGUCC-----UUUCCGUUCUCUUUAGUAAGAGAAUGAUGC-----UGU
..............(((........)))(((((.((.(.((((.....)))).)))..........-----....(((((((((....))))))))).)))-----)). ( -20.30)
>consensus
CAUUGCCUU_ACAGAGCCAUAAAAAGCUCAACAAGGCGUCUGAAAAUUU_GGCACACUU_UUGACCCCACUUUGGAUUUCUCUUAAAGAAGAGAGCAAAGC_____UGU
....(((((....((((........))))...)))))(((.((....)).)))........................(((((((....))))))).............. (-15.02 = -15.43 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:10 2006