Locus 3395

Sequence ID 2R_DroMel_CAF1
Location 11,470,418 – 11,470,538
Length 120
Max. P 0.505105
window5548

overview

Window 8

Location 11,470,418 – 11,470,538
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.78
Mean single sequence MFE -37.83
Consensus MFE -24.90
Energy contribution -24.52
Covariance contribution -0.38
Combinations/Pair 1.30
Mean z-score -1.19
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.505105
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11470418 120 + 20766785
AUCUUUAGUACAUUACAGGUACUUGUGCCCACAUCGUGGCCUUCACCUUCUGGCUGCUAAACAAGAGCACAGAUCGAAAUCCCUCGGCUGUGGUGGAGUUUUGGGGCCACGAGUUGGAAA
.......(((((...........)))))(((..((((((((((((((.....(((.((.....)))))((((.((((......))))))))))))).......)))))))))..)))... ( -39.01)
>DroVir_CAF1 25384 119 + 1
AUUUACA-UCAAUUAUAGCUGUGUGUCCGCAUGUCGUUGCCUUUGUAUUUUGGCUGCACAACAAGAGCACAGAUAAAAAGCCCACAGCUCUGUUGGAAUUCUGGGGCAAUGAGCUGGAGG
.......-.......(((((...((((((((.((((.(((....)))...))))))).(((((.((((..................)))))))))........)))))...))))).... ( -30.27)
>DroSec_CAF1 12037 120 + 1
AUCUGUAGUUUAUUACAGGUACUUGUGCCCACAUCGUGGCCUUCACCUUCUGGCUGCUAAACAAGAGCACAGAUCGAAAUCCCUCGGCUGUGGUGGAGUUUUGGGGCCACGAGUUGGAAA
((((((((....))))))))........(((..((((((((((((((.....(((.((.....)))))((((.((((......))))))))))))).......)))))))))..)))... ( -41.81)
>DroEre_CAF1 13546 120 + 1
AUCUGUAGCCCGUUUCAGGUACAUGUGCCCACAUCGUGGCCUUCACCUUCUGGCUACUAAACAGGAGCGCAGAUCGAAAUCCCUCCGCUGUGGUGGAGUUUUGGGGCCAUGAAUUGGAAA
............(((((((((....))))....(((((((((......(((((((.((....)).))).)))).(((((...((((((....))))))))))))))))))))..))))). ( -39.00)
>DroYak_CAF1 11503 120 + 1
AUCUGUAGACCAUUUCAGGCACAUGUGCCCACAUCGUGGCCUUCACCUUUUGGCUGCUAAACAAGAGCACAGAUCGAAAUCCCUCGGCUGUGGUGGAGUUUUGGGGCCAUGAACUGGAAA
.........(((.(((((((.((...((((((...(..(((..........)))..)..........(((((.((((......))))))))))))).))..))..))).)))).)))... ( -40.00)
>DroPer_CAF1 9707 117 + 1
AUCUCCUGUUC-UUAGAAG--UGUGUCCACAUAUUGUGGCCUUCACAUUUUGGCUACUGCACAAGAGUACGGAGCGACAACCCUCUGCUGUGGUUGAAUUUUGGGGGCACGAACUGGAAU
...(((.((((-.....((--((((....))))))(((.((((((...((..(((((.(((...(((...((........)))))))).)))))..))...))))))))))))).))).. ( -36.90)
>consensus
AUCUGUAGUCCAUUACAGGUACAUGUGCCCACAUCGUGGCCUUCACCUUCUGGCUGCUAAACAAGAGCACAGAUCGAAAUCCCUCGGCUGUGGUGGAGUUUUGGGGCCACGAACUGGAAA
............................(((..(((((((((......(((((((.((.....))))).)))).(((((..((((......)).))..))))))))))))))..)))... (-24.90 = -24.52 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:30 2006