Locus 6267

Sequence ID 3R_DroMel_CAF1
Location 16,348,485 – 16,348,578
Length 93
Max. P 0.981699
window10222 window10223

overview

Window 2

Location 16,348,485 – 16,348,578
Length 93
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 94.41
Mean single sequence MFE -32.28
Consensus MFE -26.36
Energy contribution -26.44
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -1.99
Structure conservation index 0.82
SVM decision value 1.31
SVM RNA-class probability 0.940348
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16348485 93 + 27905053
UCGCUUUGCACAUUUGUGCUGAGCACUGAGGACCCUUGAGCAGUUUUCAGCUCUUGCCCGGAAAGUCCAAUCCCUCUGUCAGUGGCACAUCCA
..((((.((((....)))).)))).....(((.....((((........)))).(((((.((.((..........)).)).).))))..))). ( -25.80)
>DroSec_CAF1 48160 93 + 1
UCGCUUUGCACAUUUGUGCUGAGCACUGAGGGCCCUUGAGCAGUUUCCAGCUCUUGGCCGGGAAGUCCAAUCCCUCUGUCAGUGGCACAUCCA
..((((.((((....)))).))))(((((.((((...((((........))))..))))((((.......))))....))))).......... ( -35.60)
>DroSim_CAF1 56824 93 + 1
UCGCUUUGCACAUUUGUGCUGAGCACUGAGGACCCUUGAGCAGUUUUCAGCUCUUGGCCGGGAAGUCCAAUCCCUCUGUCAGUGGCACAUCCA
..((((.((((....)))).))))(((((((.((...((((........))))..))))((((.......))))....))))).......... ( -32.00)
>DroEre_CAF1 47122 93 + 1
UCGCUUUGCACAUUUGUGCUGAGCACUGAGGGCCCUUGAGCAGCAUUCAGCUCUUGGCCGGGAUGCCCAAUCCCACUGUCAGUGGCACAUCCA
..((((.((((....)))).))))(((((.((((...((((........))))..))))(((((.....)))))....))))).......... ( -38.60)
>DroYak_CAF1 64446 93 + 1
UCGCUUUGCACAUUUGUGCUGAGCUCUGAGGACCCUUGAGCAGCUUUCAGCUCUUGGCCGGGAAGUCCAAUGCGUCUGUCAGUGGCACAUCCA
..((((.((((....)))).)))).....((.((...((((........))))..)))).(((.(((((.(((....).)).))).)).))). ( -29.40)
>consensus
UCGCUUUGCACAUUUGUGCUGAGCACUGAGGACCCUUGAGCAGUUUUCAGCUCUUGGCCGGGAAGUCCAAUCCCUCUGUCAGUGGCACAUCCA
..((((.((((....)))).))))(((((((..((..((((........))))..))))(((...)))..........))))).......... (-26.36 = -26.44 +   0.08)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,348,485 – 16,348,578
Length 93
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 94.41
Mean single sequence MFE -32.94
Consensus MFE -28.42
Energy contribution -28.86
Covariance contribution 0.44
Combinations/Pair 1.08
Mean z-score -1.90
Structure conservation index 0.86
SVM decision value 1.89
SVM RNA-class probability 0.981699
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16348485 93 - 27905053
UGGAUGUGCCACUGACAGAGGGAUUGGACUUUCCGGGCAAGAGCUGAAAACUGCUCAAGGGUCCUCAGUGCUCAGCACAAAUGUGCAAAGCGA
.((.....))(((((....((((.......))))((((..((((........))))....)))))))))(((..((((....))))..))).. ( -29.40)
>DroSec_CAF1 48160 93 - 1
UGGAUGUGCCACUGACAGAGGGAUUGGACUUCCCGGCCAAGAGCUGGAAACUGCUCAAGGGCCCUCAGUGCUCAGCACAAAUGUGCAAAGCGA
.((.....))(((((....((((.......))))((((..((((.(....).))))...)))).)))))(((..((((....))))..))).. ( -38.30)
>DroSim_CAF1 56824 93 - 1
UGGAUGUGCCACUGACAGAGGGAUUGGACUUCCCGGCCAAGAGCUGAAAACUGCUCAAGGGUCCUCAGUGCUCAGCACAAAUGUGCAAAGCGA
.((.....))(((((....((((.......))))((((..((((........))))...)))).)))))(((..((((....))))..))).. ( -32.60)
>DroEre_CAF1 47122 93 - 1
UGGAUGUGCCACUGACAGUGGGAUUGGGCAUCCCGGCCAAGAGCUGAAUGCUGCUCAAGGGCCCUCAGUGCUCAGCACAAAUGUGCAAAGCGA
.((.....))(((((....(((((.....)))))((((..((((........))))...)))).)))))(((..((((....))))..))).. ( -35.50)
>DroYak_CAF1 64446 93 - 1
UGGAUGUGCCACUGACAGACGCAUUGGACUUCCCGGCCAAGAGCUGAAAGCUGCUCAAGGGUCCUCAGAGCUCAGCACAAAUGUGCAAAGCGA
(((.....)))((((..(((.(.((((.((....))))))((((........))))..).))).)))).(((..((((....))))..))).. ( -28.90)
>consensus
UGGAUGUGCCACUGACAGAGGGAUUGGACUUCCCGGCCAAGAGCUGAAAACUGCUCAAGGGUCCUCAGUGCUCAGCACAAAUGUGCAAAGCGA
.((.....))(((((....((((.......))))((((..((((........))))...)))).)))))(((..((((....))))..))).. (-28.42 = -28.86 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:13 2006