Locus 7560

Sequence ID 3L_DroMel_CAF1
Location 20,302,302 – 20,302,405
Length 103
Max. P 0.599511
window12282

overview

Window 2

Location 20,302,302 – 20,302,405
Length 103
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 79.17
Mean single sequence MFE -37.07
Consensus MFE -20.57
Energy contribution -21.05
Covariance contribution 0.48
Combinations/Pair 1.40
Mean z-score -1.80
Structure conservation index 0.55
SVM decision value 0.13
SVM RNA-class probability 0.599511
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20302302 103 + 23771897
CUGGAGAGCUUUAAU-CAGGAGAGAGAGCCGGGGAAUAGUUC--GAGA-CUGAAGCUGUUCCUUCGACACUUUUGCGAAAUCCAGAGAACCCGGCUCGUAGCCAGAU
((((....((((...-..))))...(((((((((((((((((--(...-.)).)))))))))((((.((....))))))...........)))))))....)))).. ( -33.90)
>DroPse_CAF1 10882 106 + 1
GUAGAAAACUUUGGCGCAGGAGCAGGAGCAGAGGG-CAGCUCCGGAGACCUAAGAUCAUUCUUGCGCCAUUUCUGCGGCAUUCAGCGCACACGGCUGUUGCUCAAUU
(((((((....(((((((((((..(((((......-..)))))(....).........))))))))))))))))))((((..((((.......)))).))))..... ( -43.70)
>DroSec_CAF1 11832 103 + 1
CUGGAGAGCUUCAAU-CAGGAGGGAGAGCCGGGGAAUAGUUC--GAGA-CUGAAGCUGUUUCUGAGACACUUUUGUGAAAUCCAGAGGACCCGGCUCGUAGCCCGAU
.((((....))))..-.....(((.((((((((.((((((((--(...-.)).)))))))((((.(((((....)))...))))))...))))))))....)))... ( -35.10)
>DroSim_CAF1 11550 103 + 1
CUGGAGAGCUUCAAC-CAGGAGGGAGAGCCGGGGAAUAGUUC--GAGA-CUAAAGCUGUUCCUGCGACACUUUUGUGAAAUCCAGAGGACCCGGCUCGUGGCCAGAU
((((...((.....(-(....))..((((((((((((((((.--....-....))))))))(((.(((((....)))...)))))....))))))))))..)))).. ( -37.50)
>DroEre_CAF1 11560 103 + 1
CUGGAGAGCUUCAAC-CAGGAGGGAGAGUCGGGGAAUAGUUC--GAGA-CUGAAGCUUUUCCUGCGACACUUUUGCGAAAUCCAAAGGACCCGGCUCGUAGCCAGAU
((((.(((((((...-...))(((...(((((((((.(((((--(...-.)).)))).))))).)))).((((((.(....))))))).))))))))....)))).. ( -35.30)
>DroYak_CAF1 11162 103 + 1
CUGGAGAGCUUCAAU-CGGGAGGAGGAGCCGGGCAUUAGUUC--GAAA-CUGAGGCUUUUCCUGCGACACUUUUGUGAAAUCCAAAGGAUCCGGCUCGUAGCCGGAU
.((((..........-..(.((((((((((.....(((((..--...)-)))))))))))))).)..(((....)))...))))....(((((((.....))))))) ( -36.90)
>consensus
CUGGAGAGCUUCAAC_CAGGAGGGAGAGCCGGGGAAUAGUUC__GAGA_CUGAAGCUGUUCCUGCGACACUUUUGCGAAAUCCAGAGGACCCGGCUCGUAGCCAGAU
((((....((((......))))...(((((((((((.((((............)))).)))........((((((.(....))))))).))))))))....)))).. (-20.57 = -21.05 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:13 2006