Locus 3065

Sequence ID 2R_DroMel_CAF1
Location 10,527,506 – 10,527,746
Length 240
Max. P 0.957264
window5049 window5050

overview

Window 9

Location 10,527,506 – 10,527,626
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.08
Mean single sequence MFE -20.18
Consensus MFE -17.80
Energy contribution -17.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.88
SVM decision value 1.48
SVM RNA-class probability 0.957264
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10527506 120 - 20766785
CAGAUGAACAAAUACCGACAAUAAAACUCAAACUAUGCGAGACAAAAGCGCCAACUUUGUCAUCCCAGAAGCGAAGGUAAAAAUAAUUAAAAAGCAAAGGAAACAAUGUUUGUCAGUUAA
..((..((((.........................(((..((((((.........)))))).........((....))...............)))..(....)..))))..))...... ( -19.10)
>DroSec_CAF1 28346 120 - 1
CAGAUGAACAAAUACCGACAAUAAAACUCAAACUAUGCGAGACAAAAGCGCCAACUUUGUCAUCCCAGUAGCGAAGGUAAAAAUAAUUAAAAAGCAAAGGAAACAAUGUUUGUCAGUUAA
..((..((((..((((((.........))...((((..((((((((.........)))))).))...))))....))))...................(....)..))))..))...... ( -19.70)
>DroSim_CAF1 24530 120 - 1
CAGAUGAACAAAUACCGACAAUAAAACUCAAACUAUGCGAGACAAAAGCGCCAACUUUGUCAUCCCAGCAGCGAAGGUAAAAAUAAUUAAAAAGCAAAGGAAACAAUGUUUGUCAGUUAA
..((..((((.........................(((..((((((.........)))))).........((....))...............)))..(....)..))))..))...... ( -19.10)
>DroEre_CAF1 30587 120 - 1
CAGAUGAACAAAUACCGACAAUAAAACUCAAACUAUGCGAGACAAAAGCGCCAACUUUGUCAUCCCAGAUGUGGAGGUAAAAAUAAUUAAAAAGCAAAGGAAACAAUGUUUGUCAGUUAA
..((..((((..(((((((.......(((.........)))...((((......))))))).((((....).)))))))...................(....)..))))..))...... ( -21.40)
>DroYak_CAF1 28682 120 - 1
CAGAUGAACAAAUACCAACAAUAAAACUCAAACUAUGCGAGACAAAAGCGCCAACUUUGUCAUCACAGAAGUGGAGGUAAAAAUAAUUAAAAAGCGAAGGAAACAAUGUUUGUCAGUUAA
..((..((((..((((..........(((.........))).........(((..(((((....)))))..))).))))...................(....)..))))..))...... ( -21.60)
>consensus
CAGAUGAACAAAUACCGACAAUAAAACUCAAACUAUGCGAGACAAAAGCGCCAACUUUGUCAUCCCAGAAGCGAAGGUAAAAAUAAUUAAAAAGCAAAGGAAACAAUGUUUGUCAGUUAA
..((..((((..((((..(.......(.((.....)).).((((((.........))))))...........)..))))...................(....)..))))..))...... (-17.80 = -17.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 10,527,626 – 10,527,746
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.58
Mean single sequence MFE -22.30
Consensus MFE -18.68
Energy contribution -19.28
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.66
Structure conservation index 0.84
SVM decision value 0.78
SVM RNA-class probability 0.848864
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10527626 120 - 20766785
CACGCGUUGAAUGCAACAUAGACUCUUAACACUCCGCAAUUAGCACUCGACUUGUGCACGAAUUUGAAAUGGGAACUUUUAACUUCAUACAAAUUUGAAAUGCAAAUAGUAUUCAAUUAA
.....(((((((((....(((....))).......(((....((((.......)))).((((((((..(((((..........))))).))))))))...))).....)))))))))... ( -22.30)
>DroSec_CAF1 28466 120 - 1
CACGCGUUGAAUGCAACAUAAACUCUUAACACUCCGCAAUUAGCACUCGACUUGUGCACGAAUUUGAAAUGGUAACUUUUAACUUCAUACAAAUUUGAAAUGCAAAUAGUAUUCAAUUAA
.....(((((((((....(((....))).......(((....((((.......)))).((((((((....(((........))).....))))))))...))).....)))))))))... ( -22.90)
>DroSim_CAF1 24650 120 - 1
CACGCGUUGAAUGCAACAUAAACUCUUAACACUCCGCAAUUAGCACUCGACUUGUGCACGAAUUUGAAAUGGUAACUUUUAACUUCAUACAAAUUUGAAAUGCAAAUGGUAUUCAAUUAA
.....(((((((((....(((....))).......(((....((((.......)))).((((((((....(((........))).....))))))))...))).....)))))))))... ( -22.70)
>DroEre_CAF1 30707 120 - 1
CAGCCGUUGAAUGCAACAUGGACUCUUAACACUCCACAAUUAACACUCGACUUGUGCACGAAUUUGAAACGGGAACUUUUAACUUGAUACAAAUUUGAAAUGCAAAUAGUAUUCAAUUAA
.....(((((((((....((((..........))))..................((((((((((((...((((.........))))...))))))))...))))....)))))))))... ( -21.00)
>DroYak_CAF1 28802 120 - 1
CAACCGUUGAAUGCAUCAUAGACUCUUAACACUCCGCAAUUAGCACUCGACUUGUGCACGAAUUUGAAAUGGUAACUUUUAACUUCAUACAAAUUUGAAAUGCAAAUAGUAUUCAAUUAA
.....(((((((((....(((....))).......(((....((((.......)))).((((((((....(((........))).....))))))))...))).....)))))))))... ( -22.60)
>consensus
CACGCGUUGAAUGCAACAUAGACUCUUAACACUCCGCAAUUAGCACUCGACUUGUGCACGAAUUUGAAAUGGUAACUUUUAACUUCAUACAAAUUUGAAAUGCAAAUAGUAUUCAAUUAA
.....(((((((((............................((((.......)))).((((((((....(((........))).....))))))))...........)))))))))... (-18.68 = -19.28 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:29 2006