Locus 2742

Sequence ID X_DroMel_CAF1
Location 7,368,994 – 7,369,084
Length 90
Max. P 0.963095
window4481 window4482

overview

Window 1

Location 7,368,994 – 7,369,084
Length 90
Sequences 3
Columns 90
Reading direction forward
Mean pairwise identity 91.82
Mean single sequence MFE -36.17
Consensus MFE -32.84
Energy contribution -32.73
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -2.73
Structure conservation index 0.91
SVM decision value 1.55
SVM RNA-class probability 0.963095
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7368994 90 + 22224390
AGGGGCGGGGAGGUGCGCUGGCUUAAGCAGGAGGAGACGGGAAGCUAAAGAGGGGCAUCGUCUCCACGGCAGAGAGCCACUGACAGCUCA
..((((((((((((((.((..(((.(((....(....).....))).))).)).))))).)))))..(((.....))).......)))). ( -36.00)
>DroSec_CAF1 117718 87 + 1
AGGG--AGAGAGCGGUGCUGGCUUAAGCAGGAGGAGACGG-GAGCUGAAGAGGGGCACCGUCUCCACGGCAGAGAGCCACUGACAGCUCA
....--...((((.((..((((((..((.(..((((((((-..(((.......))).)))))))).).))...))))))...)).)))). ( -36.50)
>DroSim_CAF1 117088 89 + 1
AGGGG-GGAGAGCGGUGCUGGCUUAAGCAGGAGGAGACGGGGAGCUAAAGAGGGGCACCGUCUCCACGGCAGAGAGCCACUGACAGCUCA
.....-...((((.((..((((((..((.(..((((((((...(((.......))).)))))))).).))...))))))...)).)))). ( -36.00)
>consensus
AGGGG_GGAGAGCGGUGCUGGCUUAAGCAGGAGGAGACGGGGAGCUAAAGAGGGGCACCGUCUCCACGGCAGAGAGCCACUGACAGCUCA
.........((((..((.((((((..((.(..((((((((...(((.......))).)))))))).).))...)))))).))...)))). (-32.84 = -32.73 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 7,368,994 – 7,369,084
Length 90
Sequences 3
Columns 90
Reading direction reverse
Mean pairwise identity 91.82
Mean single sequence MFE -29.20
Consensus MFE -27.75
Energy contribution -28.20
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.33
Structure conservation index 0.95
SVM decision value 1.53
SVM RNA-class probability 0.961543
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7368994 90 - 22224390
UGAGCUGUCAGUGGCUCUCUGCCGUGGAGACGAUGCCCCUCUUUAGCUUCCCGUCUCCUCCUGCUUAAGCCAGCGCACCUCCCCGCCCCU
.(((.(((...(((((....((.(.(((((((..((.........))....))))))).)..))...)))))..))).)))......... ( -25.30)
>DroSec_CAF1 117718 87 - 1
UGAGCUGUCAGUGGCUCUCUGCCGUGGAGACGGUGCCCCUCUUCAGCUC-CCGUCUCCUCCUGCUUAAGCCAGCACCGCUCUCU--CCCU
.((((.((...(((((....((.(.((((((((.((.........))..-)))))))).)..))...)))))..)).))))...--.... ( -31.30)
>DroSim_CAF1 117088 89 - 1
UGAGCUGUCAGUGGCUCUCUGCCGUGGAGACGGUGCCCCUCUUUAGCUCCCCGUCUCCUCCUGCUUAAGCCAGCACCGCUCUCC-CCCCU
.((((.((...(((((....((.(.((((((((.((.........))...)))))))).)..))...)))))..)).))))...-..... ( -31.00)
>consensus
UGAGCUGUCAGUGGCUCUCUGCCGUGGAGACGGUGCCCCUCUUUAGCUCCCCGUCUCCUCCUGCUUAAGCCAGCACCGCUCUCC_CCCCU
.((((.((...(((((....((.(.((((((((.((.........))...)))))))).)..))...)))))..)).))))......... (-27.75 = -28.20 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:10 2006