Locus 3281

Sequence ID 3R_DroMel_CAF1
Location 8,769,080 – 8,769,185
Length 105
Max. P 0.708357
window5294

overview

Window 4

Location 8,769,080 – 8,769,185
Length 105
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -29.68
Consensus MFE -17.35
Energy contribution -19.02
Covariance contribution 1.67
Combinations/Pair 1.13
Mean z-score -2.26
Structure conservation index 0.58
SVM decision value 0.37
SVM RNA-class probability 0.708357
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8769080 105 + 27905053
GGCCAAGGCACUUACCAAAUAGU--UGCCAGCUAUUAAAACAGGUAGUUAGUUGGCCAUAAAAGGGAACUGCGCGUAUCCGAGAAAUUGCACGAUUGCCUUGAAAAU
((((((((((((........)).--))))(((((((......)))))))..))))))....((((.((.((.(((............))).)).)).))))...... ( -29.00)
>DroPse_CAF1 209777 103 + 1
UGCCG-CGCACUUACAAAAUGGUGGUGGCAGCCAUUAAAAUUGGUAGUUAGCCGGCCAUAAA-GCGAACUGCAAAUGGUUUAAGCGCUUUACGACUCUCCCGA--GU
(((((-(.((((........))))))))))((((.......)))).((.((((.(((((...-((.....))..)))))....).)))..)).((((....))--)) ( -28.50)
>DroSec_CAF1 189848 95 + 1
GGCCAAGGCACUUACCAAAUAGU--UGCCAGCUAUUAAAACAGGUAGUUAGUUGGCCAUAAAAGGGAACUGCGC----------AAUUGCACGAUUGCCUUGAAAAU
((((((((((((........)).--))))(((((((......)))))))..))))))....((((.((.((.((----------....)).)).)).))))...... ( -29.40)
>DroSim_CAF1 207237 95 + 1
GGCCAAGGCACUUACCAAAUAGU--UGCCAGCUAUUAAAACAGGUAGUUAGUUGGCCAUAAAAGGGAACUGCGC----------AAUUGCACGAUUGCCUUGAAAAU
((((((((((((........)).--))))(((((((......)))))))..))))))....((((.((.((.((----------....)).)).)).))))...... ( -29.40)
>DroEre_CAF1 206716 105 + 1
AGCCAAGGCACUUACCAAAUAGU--UGCCAGCUAUUAAAACAGGUAGUUAGUUGGCCAUAAAAGGGAAGUGCGAGUAUCCGAGGAAUUGCCCGAUUGCCUUGAAAAU
...((((((((((.((.....((--.((((((((..............)))))))).)).....))))))))..(((..((.((.....))))..)))))))..... ( -30.24)
>DroYak_CAF1 199579 105 + 1
GGCCAAGGCACUUACCAAAUAGU--UGCCAGCUAUUAAAACAGGUAGUUAGUUGGCCAUAAAAGGGAAGUGCGAAUAUCCGAGCAAUUGCACGGCUGCCUUGAAAAU
(((....((((((.((.....((--.((((((((..............)))))))).)).....))))))))......(((.((....)).)))..)))........ ( -31.54)
>consensus
GGCCAAGGCACUUACCAAAUAGU__UGCCAGCUAUUAAAACAGGUAGUUAGUUGGCCAUAAAAGGGAACUGCGA_UAUCCGAG_AAUUGCACGAUUGCCUUGAAAAU
((((((((((...((......))..))))(((((((......)))))))..))))))....((((.((.((.(((............))).)).)).))))...... (-17.35 = -19.02 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:23 2006