Locus 193

Sequence ID 3R_DroMel_CAF1
Location 851,050 – 851,163
Length 113
Max. P 0.982805
window333 window334

overview

Window 3

Location 851,050 – 851,163
Length 113
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.41
Mean single sequence MFE -45.03
Consensus MFE -34.50
Energy contribution -35.56
Covariance contribution 1.06
Combinations/Pair 1.00
Mean z-score -2.66
Structure conservation index 0.77
SVM decision value 1.93
SVM RNA-class probability 0.982805
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 851050 113 + 27905053
UGGGCUGGGGGCUUAGGACUUGG-------GACUUGGGCCUUGGGAUUUUGGAGUGAAUGGGAUAAGCUCACGCACUGCCACGCCCCCGGCCCCGAAAAUGUUAUUUUAACUACAUUUCG
.(((((((((((......((..(-------(........))..))....(((((((..((((.....))))..)))).))).)))))))))))(((((.(((..........)))))))) ( -46.70)
>DroSec_CAF1 26723 113 + 1
CGGGCUGGGGGCUUAGGACUUGG-------GACUUGGGCCUUGGGACUUCGGAGUGAAUGGGCUAAGCUCACGCACUGCCACGCCCCCGGCCCCAAAAAUGUUAUUUUAACUACAUUUCG
.(((((((((((..((..((.((-------(.(....)))).))..))..((((((..(((((...)))))..)))).))..)))))))))))...((((((..........)))))).. ( -48.80)
>DroSim_CAF1 25944 120 + 1
CGGGCUGGGGGCUUAGGACUUGGGACUUGGGACUUGGGCCUUGGGACUUCGGAGUGAAUGGGCUAAGCUCACGCACUGCCACGCCCCCGGCCCCAAAAAUGUUAUUUUAACUACAUUUCG
.(((((((((((..((..((.(((.((..(...)..))))).))..))..((((((..(((((...)))))..)))).))..)))))))))))...((((((..........)))))).. ( -51.40)
>DroEre_CAF1 27511 91 + 1
UGGGCUGGG----------------------------GCAUUGGGAC-UCGAAGUGAAUGGGCUAAGCUCACGCACUGCCACGCCCCCGGCCCCAAAAAUGUUAUUUUAACUACAUUUCG
.((((((((----------------------------(.....((..-....((((..(((((...)))))..)))).))....)))))))))...((((((..........)))))).. ( -33.20)
>consensus
CGGGCUGGGGGCUUAGGACUUGG_______GACUUGGGCCUUGGGACUUCGGAGUGAAUGGGCUAAGCUCACGCACUGCCACGCCCCCGGCCCCAAAAAUGUUAUUUUAACUACAUUUCG
.((((((((((((((((...............))))))))).(((.....(.((((..((((.....))))..)))).)....))))))))))...((((((..........)))))).. (-34.50 = -35.56 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 851,050 – 851,163
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.41
Mean single sequence MFE -37.25
Consensus MFE -30.77
Energy contribution -31.90
Covariance contribution 1.13
Combinations/Pair 1.06
Mean z-score -1.68
Structure conservation index 0.83
SVM decision value 0.46
SVM RNA-class probability 0.746082
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 851050 113 - 27905053
CGAAAUGUAGUUAAAAUAACAUUUUCGGGGCCGGGGGCGUGGCAGUGCGUGAGCUUAUCCCAUUCACUCCAAAAUCCCAAGGCCCAAGUC-------CCAAGUCCUAAGCCCCCAGCCCA
((((((((.((....)).))).)))))((((.((((((.(((.((((.(((.........))).))))))).........(((....)))-------...........)))))).)))). ( -37.90)
>DroSec_CAF1 26723 113 - 1
CGAAAUGUAGUUAAAAUAACAUUUUUGGGGCCGGGGGCGUGGCAGUGCGUGAGCUUAGCCCAUUCACUCCGAAGUCCCAAGGCCCAAGUC-------CCAAGUCCUAAGCCCCCAGCCCG
.(((((((.((....)).)))))))..((((.((((((.(((.((((.(((.((...)).))).)))))))..(((....))).......-------...........)))))).)))). ( -38.40)
>DroSim_CAF1 25944 120 - 1
CGAAAUGUAGUUAAAAUAACAUUUUUGGGGCCGGGGGCGUGGCAGUGCGUGAGCUUAGCCCAUUCACUCCGAAGUCCCAAGGCCCAAGUCCCAAGUCCCAAGUCCUAAGCCCCCAGCCCG
.(((((((.((....)).)))))))..((((.((((((.(((.((((.(((.((...)).))).)))))))..(((....))).........................)))))).)))). ( -38.40)
>DroEre_CAF1 27511 91 - 1
CGAAAUGUAGUUAAAAUAACAUUUUUGGGGCCGGGGGCGUGGCAGUGCGUGAGCUUAGCCCAUUCACUUCGA-GUCCCAAUGC----------------------------CCCAGCCCA
.(((((((.((....)).)))))))..((((..((((((((((...((....))...))).((((.....))-))....))))----------------------------))).)))). ( -34.30)
>consensus
CGAAAUGUAGUUAAAAUAACAUUUUUGGGGCCGGGGGCGUGGCAGUGCGUGAGCUUAGCCCAUUCACUCCGAAGUCCCAAGGCCCAAGUC_______CCAAGUCCUAAGCCCCCAGCCCA
.(((((((.((....)).)))))))..((((.((((((.(((.((((.(((.((...)).))).)))))))..(((....))).........................)))))).)))). (-30.77 = -31.90 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:56 2006