Locus 6623

Sequence ID 2R_DroMel_CAF1
Location 20,712,486 – 20,712,582
Length 96
Max. P 0.828209
window10546 window10547

overview

Window 6

Location 20,712,486 – 20,712,582
Length 96
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 87.84
Mean single sequence MFE -22.08
Consensus MFE -14.65
Energy contribution -15.53
Covariance contribution 0.88
Combinations/Pair 1.10
Mean z-score -2.73
Structure conservation index 0.66
SVM decision value 0.71
SVM RNA-class probability 0.828209
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20712486 96 + 20766785
UAAGGAGUUGAGCUAACCACAAAAUAGUGGCAAACGGUGAAAUACA---AAAAAAUCAUUGUUGAGAAAGCGAUUUGGUGGUCAUAAAAAGAACUACGA
....((((((..((..((((......))))..((((((((......---......)))))))).))....)))))).((((((.......).))))).. ( -16.90)
>DroSec_CAF1 146061 95 + 1
UAAGGAGUUGAGCUAACCACAAAAUAGCGGCAAACGGUGAAAUACA---AA-AAAUCAUUGUUGAGAAAGCGAUUUGGUGGUCAUAAAAACAACUCCGA
...(((((((.....(((((.((((.((..(.((((((((......---..-...))))))))..)...)).)))).)))))........))))))).. ( -26.52)
>DroEre_CAF1 187034 98 + 1
UAAGGAGUUGAGCUAACCACAAAAUAGUGGCAA-CGGGAAAAUACAACAAAAAAAUCAUUGUUGAGAAAGCGAUUUGGUGGUCAUAAAAAUGCCGCCGA
...........(((..((((......))))...-..........((((((........))))))....)))...(((((((.(((....)))))))))) ( -23.00)
>DroYak_CAF1 151979 86 + 1
UAAGGAGUUGAGCUAACCACAAAAUAGUGGCAAACGGGG-------------AAAUCAUUGUUGAGAAAGCGAUUUGGUGGUCAUAAAAACGACUCCGA
...(((((((.(((..((((......))))..(((((.(-------------....).))))).....)))((((....)))).......))))))).. ( -21.90)
>consensus
UAAGGAGUUGAGCUAACCACAAAAUAGUGGCAAACGGGGAAAUACA___AA_AAAUCAUUGUUGAGAAAGCGAUUUGGUGGUCAUAAAAACAACUCCGA
...(((((((.(((..((((......)))).........................(((....)))...)))((((....)))).......))))))).. (-14.65 = -15.53 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,712,486 – 20,712,582
Length 96
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 87.84
Mean single sequence MFE -18.48
Consensus MFE -11.74
Energy contribution -13.55
Covariance contribution 1.81
Combinations/Pair 1.05
Mean z-score -2.33
Structure conservation index 0.64
SVM decision value 0.20
SVM RNA-class probability 0.629277
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20712486 96 - 20766785
UCGUAGUUCUUUUUAUGACCACCAAAUCGCUUUCUCAACAAUGAUUUUUU---UGUAUUUCACCGUUUGCCACUAUUUUGUGGUUAGCUCAACUCCUUA
((((((......))))))...................((((........)---)))........(((.(((((......))))).)))........... ( -13.60)
>DroSec_CAF1 146061 95 - 1
UCGGAGUUGUUUUUAUGACCACCAAAUCGCUUUCUCAACAAUGAUUU-UU---UGUAUUUCACCGUUUGCCGCUAUUUUGUGGUUAGCUCAACUCCUUA
..(((((((......(((((((.((((.((......(((..(((..(-..---...)..)))..)))....)).)))).)))))))...)))))))... ( -23.80)
>DroEre_CAF1 187034 98 - 1
UCGGCGGCAUUUUUAUGACCACCAAAUCGCUUUCUCAACAAUGAUUUUUUUGUUGUAUUUUCCCG-UUGCCACUAUUUUGUGGUUAGCUCAACUCCUUA
..((.(((((....))).)).)).....(((....((((((........))))))..........-..(((((......))))).)))........... ( -20.10)
>DroYak_CAF1 151979 86 - 1
UCGGAGUCGUUUUUAUGACCACCAAAUCGCUUUCUCAACAAUGAUUU-------------CCCCGUUUGCCACUAUUUUGUGGUUAGCUCAACUCCUUA
..(((((................((((((............))))))-------------....(((.(((((......))))).)))...)))))... ( -16.40)
>consensus
UCGGAGUCGUUUUUAUGACCACCAAAUCGCUUUCUCAACAAUGAUUU_UU___UGUAUUUCACCGUUUGCCACUAUUUUGUGGUUAGCUCAACUCCUUA
..(((((((..............((((((............)))))).................(((.(((((......))))).))).)))))))... (-11.74 = -13.55 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:27 2006