Locus 1039

Sequence ID 2R_DroMel_CAF1
Location 4,269,342 – 4,269,463
Length 121
Max. P 0.636062
window1840 window1841

overview

Window 0

Location 4,269,342 – 4,269,433
Length 91
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 76.72
Mean single sequence MFE -24.78
Consensus MFE -16.73
Energy contribution -17.20
Covariance contribution 0.47
Combinations/Pair 1.18
Mean z-score -1.08
Structure conservation index 0.67
SVM decision value 0.04
SVM RNA-class probability 0.555604
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4269342 91 - 20766785
GCUCGAUGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA-GGAAGGCGCCUAAUUGGUUACAGCUCUAAUUUGAAGGAAAAAC
((((((((((....))).(((((((....))))))))))))))(.(((-..(..(((((.....)))....))..)..))).)......... ( -25.00)
>DroGri_CAF1 43913 84 - 1
ACUGGAGGUGGCCUCGCUGUGUCCAUUGACAGAAACAUUCAGCUGGAAAGAGCAAUG---AAUGAGUUGGAGUUGGAGUU---A--AGAGUU
..((((.(..((...))..).))))(..((.((..(((((((((......)))..))---))))..))...))..)....---.--...... ( -19.10)
>DroSec_CAF1 30737 91 - 1
GCUCGAAGUGGUCUCACUGUGUCCGUUCACGGCUACAUUGAGCUAAAA-GGAGGGCGCCUAAUAGGUUAUAGCUCUAAUUUGGAAGAAAAUC
((((((.((((((.....(((......))))))))).))))))..(((-..((((((((.....)))....)))))..)))........... ( -25.10)
>DroSim_CAF1 35181 91 - 1
GCUCGAAGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA-GGAAGGCGCCUAAUUGAUGAAAGCUCUAAUUUGAAGGAAAAUC
((((((((((....))))(((((((....))))))).))))))....(-((......)))................................ ( -22.80)
>DroEre_CAF1 31131 91 - 1
GCUCGAAGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA-GGAAUGGGCCUGGUGCAUUAAAGCGCGUAUGUGGAAGAAAGUC
((((((((((....))))(((((((....))))))).))))))....(-((......))).((((......))))................. ( -27.90)
>DroYak_CAF1 31145 90 - 1
GCUCGAAGUGGUCUCACUGUGUCCGUUUACGGAUACAUUGAGCUGAAA-GGAAUGCGCCUGUUGGGUUAAAGCACUUAUUUAGAGGAAA-UU
.(((.(((((..((((.((((((((....)))))))).))))(..(.(-((......))).)..).......))))).....)))....-.. ( -28.80)
>consensus
GCUCGAAGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA_GGAAGGCGCCUAAUGGGUUAAAGCUCUAAUUUGGAGGAAAAUC
((((((((((....))))(((((((....))))))).))))))................................................. (-16.73 = -17.20 +   0.47) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 4,269,370 – 4,269,463
Length 93
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 79.89
Mean single sequence MFE -31.27
Consensus MFE -18.23
Energy contribution -19.93
Covariance contribution 1.70
Combinations/Pair 1.38
Mean z-score -1.80
Structure conservation index 0.58
SVM decision value 0.21
SVM RNA-class probability 0.636062
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4269370 93 - 20766785
AGCUGUCGUAUUGCGUUUGGUCCGCUUUAAGCUCGAUGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA-GGAAGGCGCCUAAUU
............(((((...(((..((((.((((((((((....))).(((((((....)))))))))))))))))).-))).)))))...... ( -31.80)
>DroGri_CAF1 43936 91 - 1
CGCAGACGCAUUGCGUUUGGUGCGCUUCAAACUGGAGGUGGCCUCGCUGUGUCCAUUGACAGAAACAUUCAGCUGGAAAGAGCAAUG---AAUG
....((((((..(((...(((.((((((......))))))))).)))))))))............(((((((((......)))..))---)))) ( -27.90)
>DroSec_CAF1 30765 93 - 1
AGCUGUCGCAUUGCGUUUGGUCCGCUUCAAGCUCGAAGUGGUCUCACUGUGUCCGUUCACGGCUACAUUGAGCUAAAA-GGAGGGCGCCUAAUA
.(((.((((...)).(((((.(((((((......))))))).((((.((((.(((....))).)))).))))))))).-.)).)))........ ( -29.60)
>DroSim_CAF1 35209 93 - 1
AGCUGUCGCAUUGCGUUUGGUCCGCUUCAAGCUCGAAGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA-GGAAGGCGCCUAAUU
.((....))...(((((...(((..((((.((((((((((....))))(((((((....))))))).)))))))))).-))).)))))...... ( -35.50)
>DroYak_CAF1 31172 93 - 1
AGCUGUCGCAUUGCGUUUGGUCCGCUUCAAGCUCGAAGUGGUCUCACUGUGUCCGUUUACGGAUACAUUGAGCUGAAA-GGAAUGCGCCUGUUG
(((.(.((((((.(.((..(.(((((((......))))))).((((.((((((((....)))))))).)))))..)).-).)))))).).))). ( -38.80)
>DroAna_CAF1 30748 87 - 1
AGUCGUGGGAUUGCGUUUGGUCCGUUUUAGGCUCGAAGUGGUCUCACUAUGUCCAUUUACAGAGACAUUCAGCUAGAG-GGGAU------UACA
(((((((((((..(.((((..((......))..)))))..))))))).((((((.......).)))))..........-..)))------)... ( -24.00)
>consensus
AGCUGUCGCAUUGCGUUUGGUCCGCUUCAAGCUCGAAGUGGUCUCACUGUGUCCGUUCACGGAUACAUUGAGCUGAAA_GGAAGGCGCCUAAUA
............(((((...(((..(((.(((((((((((....))))(((((((....))))))).))))))))))..))).)))))...... (-18.23 = -19.93 +   1.70) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:54 2006