Locus 4658

Sequence ID 3R_DroMel_CAF1
Location 12,278,564 – 12,278,684
Length 120
Max. P 0.650494
window7649

overview

Window 9

Location 12,278,564 – 12,278,684
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.20
Mean single sequence MFE -34.71
Consensus MFE -28.60
Energy contribution -28.41
Covariance contribution -0.19
Combinations/Pair 1.07
Mean z-score -1.63
Structure conservation index 0.82
SVM decision value 0.24
SVM RNA-class probability 0.650494
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12278564 120 - 27905053
CCCCCACCCACACACACUCUUAUACAAUAAAGAGAGAGAAAGCCGCUGGAAAAUGAGCUUCACCAAGUGGUUCAAGAAGAAGGGCGGAGAUGGGGGAUCGAUCUCAGAGAUCGGUGCACC
(((((((((.......(((((........))))).......(((.((......((((((.(.....).))))))......))))))).).))))))(((((((.....)))))))..... ( -38.60)
>DroSim_CAF1 19751 120 - 1
CCCGCACACACACACACUCUUAUACAAUAAAGAGAGAGAAAGCCGCUGAAAAAUGAGCUUCACCAAGUGGUUCAAGAAAAAGGGCGGAGAUGGGGGAUCGAUCUCCGAGAUCGGUGCACC
...((((.........(((((........)))))...((..(((.((......((((((.(.....).))))))......)))))((((((.(.....).))))))....)).))))... ( -32.70)
>DroEre_CAF1 19823 118 - 1
CCC-CGCACACACACACUCUCAUACA-UAAAAAGAGAGAAAGCCGCUAGAAAAUGAGCUUCACCAAGUGGUUCAAGAAGAAGGGCGGAGAUGGGGGAUCGAUCUCCGAGAUCGGUGCACC
(((-(((.........(((((.....-......)))))....(((((......((((((.(.....).))))))........))))).).))))).(((((((.....)))))))..... ( -34.84)
>DroYak_CAF1 19967 116 - 1
CCC-CGCACA--CACACUUUCAUACA-CAAAGAGAGAGAAAGCCGCUGGAAAAUGAGCUUCACGAAGUGGUUCAAAAAGAAGGGCGGAGAUGGAGGAUCGAUCUCCGAGAUCGGUGCACC
...-.((((.--....(((((.....-....))))).((..(((.((......((((((.(.....).))))))......)))))((((((.(.....).))))))....)).))))... ( -32.70)
>consensus
CCC_CACACACACACACUCUCAUACA_UAAAGAGAGAGAAAGCCGCUGGAAAAUGAGCUUCACCAAGUGGUUCAAGAAGAAGGGCGGAGAUGGGGGAUCGAUCUCCGAGAUCGGUGCACC
(((.............(((((............)))))....(((((......((((((.(.....).))))))........)))))....)))(.(((((((.....))))))).)... (-28.60 = -28.41 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:42 2006