Locus 4655

Sequence ID X_DroMel_CAF1
Location 12,173,171 – 12,173,270
Length 99
Max. P 0.541998
window7642

overview

Window 2

Location 12,173,171 – 12,173,270
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 66.76
Mean single sequence MFE -35.66
Consensus MFE -12.30
Energy contribution -12.42
Covariance contribution 0.12
Combinations/Pair 1.17
Mean z-score -1.82
Structure conservation index 0.34
SVM decision value 0.02
SVM RNA-class probability 0.541998
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12173171 99 - 22224390
GGUAUCUGGGCCUUGGGAAAGUAGAGGUAGAGGU-------CGUG------UGCAUAUGACAAAAGCAUCUGCCUUUUGUUUGCUUGGCGCGCCCUUGGCUUU--------UUCCUUCUC
(((......)))..(((((.(.((((((.((((.-------((((------((((...(((((((((....).)))))))))))...))))).)))).)))))--------).).))))) ( -31.20)
>DroVir_CAF1 32963 99 - 1
------GGUGAGUUG-AGGGGG------AGAGGGGGUUUGGUGUACUGUGGUGCAUUGGACAAAGGCAGCUGCAUUUGGUUUGAAUAGCGCGCCCUUGGCACC--------CACCUCCCA
------.........-...(((------((..((((((..((((((....))))))..)))...(((.((.((((((.....)))).))))))).......))--------)..))))). ( -39.50)
>DroGri_CAF1 34706 94 - 1
------GGGGCGUGGCAGGGGC------AGAGG--------CGUA------GGCAUGUGACAAAAGCAGCUGCCUUUUGUUUGACUAGCGCGCCCUUGGCCCCACUUACCGCACCACACC
------..((.((((..(((((------.((((--------(((.------.((..(((((((((((....).))))))))..))..))))).)))).))))).....)))).))..... ( -35.60)
>DroEre_CAF1 23756 93 - 1
GGCAUCUGGGCCUUGGAGAAGU------UGAGGU-------CGUG------UGCAUAUGACAAAAGCAUCUGCCUUUUGUUUGGCUGGCGCGCCCUUGGCUUU--------UUCCUGCCC
.......((((...((((((((------..(((.-------((((------(((....(((((((((....).))))))))..))..))))).)))..)))))--------)))..)))) ( -39.00)
>DroYak_CAF1 24310 93 - 1
GGCAUCUGGGCCUUGGAAAAGU------UGAGGU-------CGUG------UGCAUAUGACAAAAGCAUCUGCCUUUUGUUUGGUUGGUGCGCCCUUGGCUUU--------UUCCUUCCC
(((......)))..((((((((------..((((-------((((------....))))))....(((((.(((........))).)))))...))..)))))--------)))...... ( -33.00)
>consensus
GG_AUCUGGGCCUUGGAGAAGU______AGAGGU_______CGUG______UGCAUAUGACAAAAGCAUCUGCCUUUUGUUUGACUGGCGCGCCCUUGGCUUU________UUCCUCCCC
.............................((((...................((....(((((((((....)).)))))))......))..(((...))).............))))... (-12.30 = -12.42 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:15 2006