Locus 906

Sequence ID 2R_DroMel_CAF1
Location 4,050,648 – 4,050,766
Length 118
Max. P 0.774740
window1591 window1592

overview

Window 1

Location 4,050,648 – 4,050,766
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.15
Mean single sequence MFE -35.15
Consensus MFE -26.86
Energy contribution -27.42
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -1.83
Structure conservation index 0.76
SVM decision value 0.54
SVM RNA-class probability 0.774740
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4050648 118 + 20766785
UCGUUUGCGGGACAUGGCGCUCUUGUCUGCACUUGUACGACAAGAGCUUGGACCAUGAUUAAGAAAUGUAAACAAUCCACAUCAAAAAAAAGUGGCUGAAUGUCC--CUAAGUCGGCAUC
(((((((.(((((((...((((((((((((....))).)))))))))(..(.((((.........((((.........)))).........)))))..)))))))--))))).))).... ( -36.97)
>DroSec_CAF1 33167 120 + 1
UCGUUUGCGGGACAUGGCGCUCUUGUCUGCAGUUGUACGACAAGAGCUUGGACCAUGAUUAAGAAAUGUAAACAAUCUACAUAAAAAAAAAGUGGCUGAAUGUCCGUCUAAGUCGGCAUC
.((....))((((((...((((((((((((....))).)))))))))(..(.((((.........(((((.......))))).........)))))..)))))))(((......)))... ( -36.37)
>DroSim_CAF1 38067 119 + 1
UCGUUUGCGGGACAUGGCGCUCUUGUCUGCAGUUGUACGACAAGAGCUUGGACCAUGAUUAAGAAAUGUAAACAAUCUACAUCAAA-AAAAGUGGCUGAAUGUCCGUCUAAGUCGGCAUC
.((....))((((((...((((((((((((....))).)))))))))(..(.((((.........(((((.......)))))....-....)))))..)))))))(((......)))... ( -35.93)
>DroEre_CAF1 32608 118 + 1
UCGUUUGCGGGACAUGGCGCUCUUGUCUGCACUUAUGCGACCAGGGCUUGGACCAUGAUUAAGAAAUGUAAACAAUCCACAUCAAAAA--AGUGGCUGUUGGUCUGGCCAAGUCGGCAUC
.....(((..(((.(((((((((.(((.(((....)))))).)))))..(((((.......(....)...((((..((((........--.)))).))))))))).)))).))).))).. ( -36.60)
>DroYak_CAF1 36523 118 + 1
UCGUUUGCGGGACAUGGCACUCUUGUCUGCACUUGUACGACGAGAGCUUGGACCAUGAUUAAGAAAUGUAAACAAUCCACAUCAAAAA--UAAGACUGAUGGUCUGUCCAAAUCGGCAUU
..(((((((.((((((((.(((((((((((....))).))))))))....).))))).))......)))))))......(((((....--......)))))...((((......)))).. ( -29.90)
>consensus
UCGUUUGCGGGACAUGGCGCUCUUGUCUGCACUUGUACGACAAGAGCUUGGACCAUGAUUAAGAAAUGUAAACAAUCCACAUCAAAAAAAAGUGGCUGAAUGUCCGUCUAAGUCGGCAUC
..(((((((.((((((((((((((((((((....))).)))))))))...).))))).))......))))))).....................(((((.............)))))... (-26.86 = -27.42 +   0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,050,648 – 4,050,766
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.15
Mean single sequence MFE -32.76
Consensus MFE -25.92
Energy contribution -26.16
Covariance contribution 0.24
Combinations/Pair 1.10
Mean z-score -1.61
Structure conservation index 0.79
SVM decision value 0.40
SVM RNA-class probability 0.721302
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4050648 118 - 20766785
GAUGCCGACUUAG--GGACAUUCAGCCACUUUUUUUUGAUGUGGAUUGUUUACAUUUCUUAAUCAUGGUCCAAGCUCUUGUCGUACAAGUGCAGACAAGAGCGCCAUGUCCCGCAAACGA
.....((.....(--((((((...((((.........((((((((...)))))))).........))))....((((((((((((....))).)))))))))...))))))).....)). ( -36.87)
>DroSec_CAF1 33167 120 - 1
GAUGCCGACUUAGACGGACAUUCAGCCACUUUUUUUUUAUGUAGAUUGUUUACAUUUCUUAAUCAUGGUCCAAGCUCUUGUCGUACAACUGCAGACAAGAGCGCCAUGUCCCGCAAACGA
..((((......)..((((((...((((..........(((((((...)))))))..........))))....((((((((((((....))).)))))))))...)))))).)))..... ( -30.75)
>DroSim_CAF1 38067 119 - 1
GAUGCCGACUUAGACGGACAUUCAGCCACUUUU-UUUGAUGUAGAUUGUUUACAUUUCUUAAUCAUGGUCCAAGCUCUUGUCGUACAACUGCAGACAAGAGCGCCAUGUCCCGCAAACGA
(((((((.......))).))))..((.......-...((((((((...)))))))).......((((((....((((((((((((....))).)))))))))))))))....))...... ( -31.90)
>DroEre_CAF1 32608 118 - 1
GAUGCCGACUUGGCCAGACCAACAGCCACU--UUUUUGAUGUGGAUUGUUUACAUUUCUUAAUCAUGGUCCAAGCCCUGGUCGCAUAAGUGCAGACAAGAGCGCCAUGUCCCGCAAACGA
..(((.(((.((((..(((((((((((((.--........)))).))))................)))))...((.((.((((((....))).))).)).)))))).)))..)))..... ( -33.49)
>DroYak_CAF1 36523 118 - 1
AAUGCCGAUUUGGACAGACCAUCAGUCUUA--UUUUUGAUGUGGAUUGUUUACAUUUCUUAAUCAUGGUCCAAGCUCUCGUCGUACAAGUGCAGACAAGAGUGCCAUGUCCCGCAAACGA
..(((.(((.(((((((.((((..(((...--.....))))))).))))))).))).......((((((....(((((.((((((....))).))).)))))))))))....)))..... ( -30.80)
>consensus
GAUGCCGACUUAGACGGACAUUCAGCCACUUUUUUUUGAUGUGGAUUGUUUACAUUUCUUAAUCAUGGUCCAAGCUCUUGUCGUACAAGUGCAGACAAGAGCGCCAUGUCCCGCAAACGA
..(((................................((((((((...)))))))).......((((((....((((((((((((....))).)))))))))))))))....)))..... (-25.92 = -26.16 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:52 2006