Locus 4735

Sequence ID 2R_DroMel_CAF1
Location 15,549,557 – 15,549,650
Length 93
Max. P 0.608863
window7619 window7620

overview

Window 9

Location 15,549,557 – 15,549,650
Length 93
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 83.84
Mean single sequence MFE -26.38
Consensus MFE -14.75
Energy contribution -16.00
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -2.35
Structure conservation index 0.56
SVM decision value 0.12
SVM RNA-class probability 0.592352
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15549557 93 + 20766785
CGCACCCAAAGGCCGAAAAAAAAAAACGAAAAAGGCAGUGACC-----------AGACUGAAAAGCGGGGUCUGUCACUGCCAUCAAGUGCCUUGUUAACAACC
........(((((((...........)).....(((((((((.-----------(((((.........)))))))))))))).......))))).......... ( -27.40)
>DroSec_CAF1 343288 90 + 1
CGCACCCAAAGGCCGAAAA---AAAACGAAAAAGGCAGUGAGC-----------AGACUGAAAAGCGGGGUCUGUCACUGCCAUCAAGUGCCUUGUUAACAACC
........(((((((....---....)).....((((((((.(-----------(((((.........)))))))))))))).......))))).......... ( -28.40)
>DroSim_CAF1 323148 90 + 1
CGCACCCAAAGGCCGAAAA---AAAACUAAAAAGGCAGUGAGC-----------AGACUGAAAAGCGGGGUCUGUCACUGCCAUCAAGUGCCUUGUUAACAACC
........(((((((....---....)......((((((((.(-----------(((((.........)))))))))))))).....).))))).......... ( -26.70)
>DroAna_CAF1 318383 104 + 1
CGCACCCAAAAACAGAGUCCCAGAGACCAUAAGAGCAGAGACCCUCGGAGCCAGAGUCUGAAAAGCGGGGUCUGUCACUGCCAUCAAGUGCCUUGUUAACAACC
.((((.........(.(((.....))))....(.((((.(((....(((.((...(.((....))).)).)))))).))))).....))))............. ( -23.00)
>consensus
CGCACCCAAAGGCCGAAAA___AAAACGAAAAAGGCAGUGACC___________AGACUGAAAAGCGGGGUCUGUCACUGCCAUCAAGUGCCUUGUUAACAACC
.((((.(.......)..................(((((((((............(((((.........)))))))))))))).....))))............. (-14.75 = -16.00 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 15,549,557 – 15,549,650
Length 93
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 83.84
Mean single sequence MFE -30.16
Consensus MFE -19.11
Energy contribution -19.93
Covariance contribution 0.81
Combinations/Pair 1.09
Mean z-score -1.81
Structure conservation index 0.63
SVM decision value 0.15
SVM RNA-class probability 0.608863
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15549557 93 - 20766785
GGUUGUUAACAAGGCACUUGAUGGCAGUGACAGACCCCGCUUUUCAGUCU-----------GGUCACUGCCUUUUUCGUUUUUUUUUUUCGGCCUUUGGGUGCG
.............(((((..(.(((((((((((((...........))))-----------.)))))))))....(((...........)))...)..))))). ( -29.50)
>DroSec_CAF1 343288 90 - 1
GGUUGUUAACAAGGCACUUGAUGGCAGUGACAGACCCCGCUUUUCAGUCU-----------GCUCACUGCCUUUUUCGUUUU---UUUUCGGCCUUUGGGUGCG
.............(((((..(.(((((((((((((...........))))-----------).))))))))....(((....---....)))...)..))))). ( -30.50)
>DroSim_CAF1 323148 90 - 1
GGUUGUUAACAAGGCACUUGAUGGCAGUGACAGACCCCGCUUUUCAGUCU-----------GCUCACUGCCUUUUUAGUUUU---UUUUCGGCCUUUGGGUGCG
.............(((((..(.(((((((((((((...........))))-----------).))))))))......(((..---.....)))..)..))))). ( -28.70)
>DroAna_CAF1 318383 104 - 1
GGUUGUUAACAAGGCACUUGAUGGCAGUGACAGACCCCGCUUUUCAGACUCUGGCUCCGAGGGUCUCUGCUCUUAUGGUCUCUGGGACUCUGUUUUUGGGUGCG
.............(((((..(..((((.(.((((..(((......((((((((....).))))))).........)))..))))...).))))..)..))))). ( -31.96)
>consensus
GGUUGUUAACAAGGCACUUGAUGGCAGUGACAGACCCCGCUUUUCAGUCU___________GCUCACUGCCUUUUUCGUUUU___UUUUCGGCCUUUGGGUGCG
.............(((((..(.(((((((((((((...........))))............)))))))))....(((...........)))...)..))))). (-19.11 = -19.93 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:06 2006