Locus 3035

Sequence ID 2R_DroMel_CAF1
Location 10,473,637 – 10,473,788
Length 151
Max. P 0.751019
window4999 window5000

overview

Window 9

Location 10,473,637 – 10,473,748
Length 111
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 74.56
Mean single sequence MFE -23.78
Consensus MFE -15.64
Energy contribution -15.53
Covariance contribution -0.11
Combinations/Pair 1.09
Mean z-score -1.48
Structure conservation index 0.66
SVM decision value 0.48
SVM RNA-class probability 0.751019
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10473637 111 - 20766785
CCCCACUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCGAAACGGAUCCGG---AAUUGUAAUUUCAGAUUAUAG------AAUUCUUACUUUACUCUUACUCUGUUUACGUGUUGG
.((.((.((((((((((((...(((((.......)))))........)))))))---))))((((...((((.((.((------(.............))))).)))).))))).)).)) ( -27.82)
>DroSec_CAF1 77147 98 - 1
CCACAUUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCUAAACGGAUCCGGUGAAAUUGUUAUGCGAGAUUAUAG------AUUUCA----------------UGUUUUCGUGCUGG
.......((((.(((((((.(((((((...........)))))))..)))))))............((((((.(((.(------....))----------------)).)))))))))). ( -23.20)
>DroSim_CAF1 77691 104 - 1
CCCCAUUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCUUAACGGAUCUGGUGAAAUUGUAAUGCGAUAUUAUACUUAAGAGUUUCA----------------UGCUUUCUUGCUGG
..(((..(((.((((.......(((((.......)))))......)))).)))((((((((((((((...))))))).......))))))----------------)((......))))) ( -20.33)
>consensus
CCCCAUUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCUAAACGGAUCCGGUGAAAUUGUAAUGCGAGAUUAUAG______AUUUCA________________UGUUUUCGUGCUGG
.......((((.(((((((...(((((.......)))))........)))))))......((((((.....))))))......................................)))). (-15.64 = -15.53 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,473,673 – 10,473,788
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 74.51
Mean single sequence MFE -27.26
Consensus MFE -18.14
Energy contribution -18.20
Covariance contribution 0.06
Combinations/Pair 1.31
Mean z-score -1.47
Structure conservation index 0.67
SVM decision value 0.05
SVM RNA-class probability 0.558478
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10473673 115 - 20766785
UUCCAAUCCUUGGACGAGGACUGAAUUUUAGUAACAUCUGCCCCACUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCGAAACGGAUCCGG---AAUUGUAAUUUCAGAUUAUAG--
...((.(((((....))))).))............(((((.......((((((((((((...(((((.......)))))........)))))))---)))))......))))).....-- ( -32.92)
>DroSec_CAF1 77167 118 - 1
UUCCAAUCCUCCGACGAGGGCUGAAUUUUAGUAACAUCUGCCACAUUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCUAAACGGAUCCGGUGAAAUUGUUAUGCGAGAUUAUAG--
...((..((((....))))..))((((((.((((((.(((.......)))..(((((((.(((((((...........)))))))..)))))))......))))))..))))))....-- ( -29.30)
>DroSim_CAF1 77715 120 - 1
UUCCAAUCCUCGGACGAGGGCUGAAUUUUAGUAACAUCUGCCCCAUUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCUUAACGGAUCUGGUGAAAUUGUAAUGCGAUAUUAUACUU
.(((((((....))((.(((((((((....(((.....)))...)))))))))))......)))))(((((...((((........))))..))))).((((.....))))......... ( -28.40)
>DroYak_CAF1 78534 95 - 1
UAACAAUUCCCGGACAAGGACUGAGUUUUAGUAUCAUCUGCCCUAUUCAGUUGCAGAUCAGGAGGACAACCAUCGUU-----AAACUGA-CUGGUAUAAUU-------------------
.........((((.....((((((((..(((......)))....)))))))).....((((...(((.......)))-----...))))-)))).......------------------- ( -18.40)
>consensus
UUCCAAUCCUCGGACGAGGACUGAAUUUUAGUAACAUCUGCCCCAUUCAGUUCCGGAUCAUUUGGAUCACCUUCAUCCAUCUAAACGGAUCCGGUGAAAUUGUAAUGCGAGAUUAUAG__
.......((((....))))(((((((....(((.....)))...))))))).(((((((...(((((.......)))))........))))))).......................... (-18.14 = -18.20 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:41 2006