Locus 2487

Sequence ID	3L_DroMel_CAF1
Location	6,982,031 – 6,982,187
Length	156
Max. P	0.944963

overview

Window 5

Location	6,982,031 – 6,982,150
Length	119
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	96.64
Mean single sequence MFE	-36.06
Consensus MFE	-31.67
Energy contribution	-31.98
Covariance contribution	0.31
Combinations/Pair	1.04
Mean z-score	-2.40
Structure conservation index	0.88
SVM decision value	0.94
SVM RNA-class probability	0.886461
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6982031 119 + 23771897
AGCCAAAUUUGGCAUGUAAAUCCUUUAAAUCAAACAAAAUGCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAAGCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAA
.(((.......((.....(((((...................)))))..))((((...(((.(.((.......)).).)))...))))((((((.((((...)))).)))))).))).. ( -36.11)
>DroSec_CAF1 51868 119 + 1
AGCCAAAUUUGGCAUGUAAAUCCUUUAAAUCAAACAAAAUGCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAACCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGUAA
.(((....(((((((((.(((((...................)))))..))))..(..((..((.....))..))..)))))).....((((((.((((...)))).)))))).))).. ( -33.31)
>DroSim_CAF1 51626 119 + 1
AGCCAAAUUUGGCAUGUAAAUCCUUUAAAUCAAACAAAAGGCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAGCCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAA
.(((....(((((((((.(((((...................)))))..))))..(..(((.((.....)).)))..)))))).....((((((.((((...)))).)))))).))).. ( -38.51)
>DroEre_CAF1 51692 119 + 1
AGCCCAAUUUGGCAUGUAAAUCCUUUAAAUCAAACAAAAUGCGAAGUGGGCGUUUCAGGGCGUAGCAAAUAAACCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAA
.(((((.(((.((((.......................)))).))))))))((((...(((.(.............).)))...))))((((((.((((...)))).))))))...... ( -36.32)
>consensus
AGCCAAAUUUGGCAUGUAAAUCCUUUAAAUCAAACAAAAUGCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAACCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAA
.(((....(((((.....(((((...................)))))..(((((....)))))...............))))).....((((((.((((...)))).)))))).))).. (-31.67 = -31.98 +   0.31)

alignment

secondary structure

dotplot

Window 6

Location	6,982,071 – 6,982,187
Length	116
Sequences	4
Columns	119
Reading direction	forward
Mean pairwise identity	89.79
Mean single sequence MFE	-39.94
Consensus MFE	-35.88
Energy contribution	-36.57
Covariance contribution	0.69
Combinations/Pair	1.07
Mean z-score	-1.98
Structure conservation index	0.90
SVM decision value	1.35
SVM RNA-class probability	0.944963
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6982071 116 + 23771897
GCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAAGCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAACUCUUUU---CUCCAUCCGGAUCCCCAAUCCCCAUCACUG
(.((((((((.(.((((((((.(.((.......)).).))).......((((((.((((...)))).))))))((....)).....---......))))).))))))))).)....... ( -45.40)
>DroSec_CAF1 51908 116 + 1
GCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAACCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGUAACUCUUUU---CCCCAUCCGGAUCCCCAAUCCCCAUCACUG
(.((((((((.(.((((((((.(.............).))).......((((((.((((...)))).)))))).............---......))))).))))))))).)....... ( -40.32)
>DroSim_CAF1 51666 115 + 1
GCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAGCCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAACUCUU-U---CCCCAUCCGGAUCCCCAAUCCCCAUCACUG
(.((((((((.(.((((((((.(.((......))..).))).......((((((.((((...)))).))))))((....))...-.---......))))).))))))))).)....... ( -44.10)
>DroEre_CAF1 51732 109 + 1
GCGAAGUGGGCGUUUCAGGGCGUAGCAAAUAAACCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAACUCUUUUUCCCCCCAUUC--AUCCCCAUCCCC--------
..(((.((((.((((...(((.(.............).)))...))))((((((.((((...)))).))))))((....)).........)))))))--............-------- ( -29.92)
>consensus
GCGGAUUGGGCGUUUCGGGGCGUAGCAAAUAAACCAAGGCCAAUAAACGUCGGCAGGCGACACGCCAGCUGACAGGCAACUCUUUU___CCCCAUCCGGAUCCCCAAUCCCCAUCACUG
..((((((((.(.((((((((.(.............).))).......((((((.((((...)))).))))))((....))..............))))).)))))))))......... (-35.88 = -36.57 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:50 2006