Locus 5519

Sequence ID 2R_DroMel_CAF1
Location 17,661,186 – 17,661,306
Length 120
Max. P 0.961378
window8844

overview

Window 4

Location 17,661,186 – 17,661,306
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.58
Mean single sequence MFE -29.38
Consensus MFE -27.02
Energy contribution -27.02
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.92
SVM decision value 1.53
SVM RNA-class probability 0.961378
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17661186 120 + 20766785
GCUAAUGAUUAUCUCUUAGUUGGUUAGUCAAGUGUCAGUCUAACACAAGACAAACACAUAUAUCCGCCGAGAGUGAAGAACCAAAACACCGGCCAGCUAACAGCCGACAUUGGGUGAAAA
.((((((.((..((.(((((((((..((...((((..((((......))))..)))).......(((.....)))............))..))))))))).))..))))))))....... ( -29.90)
>DroSec_CAF1 14642 120 + 1
GCUAAUGAUUAUCUCUUAGUUGGUUAGUCAAGUGUCAGUCUAACACAAGACAAACACAUAUAUCCGCCGAGAGUGAAGAACCAAAACACCGGCCAGCUAACAGCCGACAUCGGGUGAAAA
...............(((((((((..((...((((..((((......))))..)))).......(((.....)))............))..)))))))))((.(((....))).)).... ( -30.00)
>DroSim_CAF1 20656 120 + 1
GCUAAUGAUUAUCUCUUAGUUGGUUAGUCAAGUGUCAGUCUAACACAAGACAAACACAUAUAUCCGCCGAGAGUGAAGAACCAAAACACCGGCCAGCUAACAGCCGACAUCGGGUGAAAA
...............(((((((((..((...((((..((((......))))..)))).......(((.....)))............))..)))))))))((.(((....))).)).... ( -30.00)
>DroEre_CAF1 14977 120 + 1
GCUAAUGAUUAUCUCUUAGUUGGUUAGUCAAGUGUCAGUCUAACACAAGACAAACACAUAUAUCCGCCGAGAGUGAAGAGCCAAAACACCGGCAAUCCAACAGCCGACAUCGGGUGAAAA
......((((..((((..((.((.((.....((((..((((......))))..))))...)).))))..))))......(((........)))))))...((.(((....))).)).... ( -28.20)
>DroYak_CAF1 26484 120 + 1
GCUAAUGAUUAUCUCUUAGUUGGUUAGUCAAGUGUCAGUCUAACACAAGACAAACACAUAUAUCCGCCGAGAGUGAGGAACCAAAACACCGGCAAACUAACAGCCGACAUCGGGUGAAAA
(((((.((.....)))))))(((((.(((..((((..((((......))))..)))).....(((.((....).).)))...........))).))))).((.(((....))).)).... ( -28.80)
>consensus
GCUAAUGAUUAUCUCUUAGUUGGUUAGUCAAGUGUCAGUCUAACACAAGACAAACACAUAUAUCCGCCGAGAGUGAAGAACCAAAACACCGGCCAGCUAACAGCCGACAUCGGGUGAAAA
........((((((..(.(((((((......((((..((((......))))..))))........((((.(.((...........)).)))))........))))))))..))))))... (-27.02 = -27.02 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:33 2006