Locus 9948

Sequence ID 3R_DroMel_CAF1
Location 26,638,819 – 26,638,913
Length 94
Max. P 0.513836
window15854

overview

Window 4

Location 26,638,819 – 26,638,913
Length 94
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 70.26
Mean single sequence MFE -28.63
Consensus MFE -12.01
Energy contribution -12.60
Covariance contribution 0.59
Combinations/Pair 1.15
Mean z-score -1.67
Structure conservation index 0.42
SVM decision value -0.04
SVM RNA-class probability 0.513836
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26638819 94 - 27905053
CAGCCCA---------CCCA---GGUGACCUUGACUU-AUGAGCUUUGCGAGCCCUGAAACACUGAAAUGAA-------AGCAAUUGCUCAAGUUCAAG-GCCGCACAUUGCGUG
.....((---------(.((---((((.((((((((.-.(((((.((((.......................-------.))))..))))))).)))))-)...))).))).))) ( -24.46)
>DroSec_CAF1 230313 74 - 1
CAGCCCA---------CCCA---GGUGACCUUGACUU-AUGAGCUUUGCG--------------------AA-------AGCAAUUGCUCAAGUUCAAG-GCCGCACAUUGCGUG
.....((---------(.((---((((.((((((((.-.(((((.((((.--------------------..-------.))))..))))))).)))))-)...))).))).))) ( -29.30)
>DroSim_CAF1 226669 74 - 1
CAGCCCA---------CCCA---GGUGACCUUGACUU-AUGAGCUUUGCG--------------------AA-------AGCAAUUGCUCAAGUUCAAG-GCCGCACAUUGCGUG
.....((---------(.((---((((.((((((((.-.(((((.((((.--------------------..-------.))))..))))))).)))))-)...))).))).))) ( -29.30)
>DroEre_CAF1 239690 94 - 1
CGGCCCA---------CCCA---GGUGACCUUGACUU-AUGAGCUUUGCUAGCCCUGAAACGCUGAAGUGAA-------CGCAAUUGCCCAAGUUCAAG-GCCGCACAUUGCGUG
.((((((---------(...---.)))...((((((.-.((.((.((((((((........))))..(....-------)))))..)).)))).)))))-)))((.....))... ( -23.90)
>DroYak_CAF1 233774 94 - 1
CAGCCCA---------CCCA---GGUGACCUUGACUU-AUGAGCUUUGCUAGCCCUGAAACACCGAAGUGAA-------AGCAAUUGCUCAAGUUCAAG-GCCGCACAUUGCGUG
.....((---------(.((---((((.((((((((.-.(((((.(((((..(.((..........)).)..-------)))))..))))))).)))))-)...))).))).))) ( -27.60)
>DroPer_CAF1 284966 109 - 1
GAAUGGGCACCCCCUCUCCACGCACUGACCUUGACGGGAGGUGCGUUACAAAGCCU------CUCGAGUAACGGCAACUCGAAGUUGUCCAAGUUCAAGGGCCACAAAAGGCGUG
((..(((....)))..))(((.......((((((((((((((..........))))------))))......((((((.....)))))).....))))))(((......)))))) ( -37.20)
>consensus
CAGCCCA_________CCCA___GGUGACCUUGACUU_AUGAGCUUUGCGAGCCCU______CUGAAGUGAA_______AGCAAUUGCUCAAGUUCAAG_GCCGCACAUUGCGUG
........................(((.((((((((...(((((.((((...............................))))..))))))).))))).).))).......... (-12.01 = -12.60 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:45:28 2006