Locus 2343

Sequence ID 3R_DroMel_CAF1
Location 6,672,859 – 6,672,972
Length 113
Max. P 0.584487
window3783

overview

Window 3

Location 6,672,859 – 6,672,972
Length 113
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.65
Mean single sequence MFE -32.14
Consensus MFE -18.64
Energy contribution -20.25
Covariance contribution 1.61
Combinations/Pair 1.15
Mean z-score -1.71
Structure conservation index 0.58
SVM decision value 0.10
SVM RNA-class probability 0.584487
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6672859 113 + 27905053
CAACGGGGAAAGCCAAACAGGCAACCGCCACAGAUCCGAAUCGGAUUCCCACAACCGCGAUAUGUUUAUGGAGAUAACCGACUCCAUGGACGAACUGGCCAGUCCGGGAU---CAC
....((((...(((.....)))..)).))...(((((....((((((.((((......)...(((((((((((........)))))))))))...)))..))))))))))---).. ( -34.80)
>DroGri_CAF1 81913 107 + 1
ACACAAGGAAACCAA---UGGAAAACACAACAAAUCCGAA------GCCAUUAGCCGAGAGGUAUUAAUCGAAAUAUCCGAUUCUCUCGACGAAUUCAGUAGUCCGAGAAGACAAC
......(((....((---(((...................------.))))).(((....))).............)))..(((((..(((..........))).)))))...... ( -17.25)
>DroSec_CAF1 57450 113 + 1
AAACAGGGAAAGCGAAACAGGCAAUCGCCACAGAUCCGAAUCGGAUUCCCAUAACCGCGAUAUGUUUAUGGAGAUAAGCGACUCCAUGGACGAACUGGCCAGUCCGGGAU---CAC
.....(((((.........(((....))).....((((...)))))))))........(((.(((((((((((........)))))))))))..((((.....)))).))---).. ( -33.60)
>DroSim_CAF1 57946 113 + 1
AAACAGGGAAAGCGAAACAGGCAAUCGCCACAGAACCGAAUCGGAUUCCCAUAACCGCGAUAUGUUUAUGGAGAUAAGCGACUCAAUGGACGACCUGGCCAGUCCGGGAU---CGC
.....(((((.........(((....)))......(((...))).)))))......(((((.(((((((.(((........))).))))))).(((((.....)))))))---))) ( -33.10)
>DroEre_CAF1 58490 113 + 1
AAACGGGGAAAGCCAAACAGGCAAUCGCCACAGAUCCGAACCGGAUGCCCAUAAUCGUGAUCUGUUCAUGGAAAUAACCGAUUCCAUGGACGAACUGGCAAGUCCGGAAU---CCC
...((((((..(((.....)))..))((((.((((((((...((....))....))).)))))((((((((((........))))))))))....))))...))))....---... ( -37.80)
>DroYak_CAF1 59120 113 + 1
AAACGGGGAAAGCCAAUCCGGCAAUCGCCACAGAUCCGAAUCGGACUCCCAUAACCGCGAUCUGUUCAUGGAAAUAACCGACUCCAUGGACGAACUGGCCAGUCCGGGAU---CCC
....((.((..(((.....)))..)).))...(((((....((((((.......(((.(.((.(((((((((..........))))))))))).))))..))))))))))---).. ( -36.30)
>consensus
AAACAGGGAAAGCCAAACAGGCAAUCGCCACAGAUCCGAAUCGGAUUCCCAUAACCGCGAUAUGUUUAUGGAAAUAACCGACUCCAUGGACGAACUGGCCAGUCCGGGAU___CAC
......(((..((......(((....))).(((((((.....))))................(((((((((((........)))))))))))..)))))...)))........... (-18.64 = -20.25 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:00 2006