Locus 1792

Sequence ID 2R_DroMel_CAF1
Location 6,705,880 – 6,705,987
Length 107
Max. P 0.606504
window2976

overview

Window 6

Location 6,705,880 – 6,705,987
Length 107
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 76.87
Mean single sequence MFE -25.62
Consensus MFE -17.71
Energy contribution -17.33
Covariance contribution -0.37
Combinations/Pair 1.20
Mean z-score -1.55
Structure conservation index 0.69
SVM decision value 0.15
SVM RNA-class probability 0.606504
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6705880 107 - 20766785
GAAAAACCGAAAAGAAGCAGAGCCAACUGUUGCCAAUUUCCCUCGAUUAGGGAGCCGGGGGAAGGGCGGGGGGCA-------AGGA------AUAGGAAAAUCCAAACUGGCGGCAGACG
................((...((((.((.(((((...((((((((..........)))))))).))))).))...-------....------...((.....))....)))).))..... ( -32.60)
>DroSec_CAF1 54319 89 - 1
GAAAAACCGAAAAGAAGCAGAGCCAACUGUUGCCAAUUUCCAC-GGU---------------AGG--UGGGGGCA-------AGGA------AUAGGAAAAUCCAAACUGGCGGCAGACG
..........................(((((((((.(..((((-...---------------..)--)))..)..-------....------...((.....))....)))))))))... ( -23.90)
>DroSim_CAF1 61135 96 - 1
GAAAAACCGAAAAGAAGCAGAGCCAACUGUUGCCAAUUUCCAC-GGU---------------GGG--UGGGGGGAGGGGAGUAGGA------AUAGGAAAAUCCAAACUGGCGGCAGACG
................((...((((.(((((.((..(..((((-...---------------..)--)))..)...)).)))))..------...((.....))....)))).))..... ( -25.90)
>DroYak_CAF1 55028 92 - 1
GAAAACCCGAGAAGAAGCAGAGCCAACUGUUGCCGAUUUCCAU-------------------UGG--AGGGGGCA-------AGAAAGUGGAAAAGGAAAAUUCGAACUGGCGGCAGACG
................((...(((((((.(((((..(((((..-------------------.))--))).))))-------)...))).(((........)))....)))).))..... ( -20.10)
>consensus
GAAAAACCGAAAAGAAGCAGAGCCAACUGUUGCCAAUUUCCAC_GGU_______________AGG__UGGGGGCA_______AGGA______AUAGGAAAAUCCAAACUGGCGGCAGACG
..........................(((((((((.(..(((.........................)))..)......................((.....))....)))))))))... (-17.71 = -17.33 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:14 2006