Locus 2895

Sequence ID 3R_DroMel_CAF1
Location 7,771,604 – 7,771,706
Length 102
Max. P 0.709118
window4669

overview

Window 9

Location 7,771,604 – 7,771,706
Length 102
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.25
Mean single sequence MFE -39.17
Consensus MFE -26.30
Energy contribution -26.97
Covariance contribution 0.67
Combinations/Pair 1.29
Mean z-score -1.74
Structure conservation index 0.67
SVM decision value 0.37
SVM RNA-class probability 0.709118
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7771604 102 + 27905053
UGCGCUGGGGAGCAGACCGACCAGGUCUGGUUUUUGGGCCGGGAAUCGCAAUCCGAGGUGGAAUCGGAA-GGCGGCCCAAAAGGGGG-AAGCUCCGAGUAGUGU
.((((((.((((((((((.....)))))..(((((((((((.....)((..(((((.......))))).-.))))))))))))....-..)))))...)))))) ( -45.70)
>DroSec_CAF1 68785 103 + 1
UGCGCUGGGGAGCAGGCCGACAUGGUCUGGUUUUUGGGCCGGGAAUCGCAAUCCGAGGUGGAAUCGGAA-GGCGGCCUAAAGGGGGGUUAGCUCCGAAUAGUGU
.((((((.(((((..(((..(..((((..(...)..))))(((...(((..(((((.......))))).-.))).)))....)..)))..)))))...)))))) ( -42.80)
>DroSim_CAF1 72037 103 + 1
UGCGCUGGGGAGCAGGGCGACCGGGUCUGGUUUUUGGGCCGGGAAUCGCAAUCCGAGGUGGAAUCGGAA-GGCGGCCUAAAGGGGGGUUAGCUCCGAAUAGUGU
.((((((.(((((...((((((.((((..(...)..)))).))..))))..(((.((((.(...(....-).).))))...)))......)))))...)))))) ( -42.40)
>DroEre_CAF1 69272 101 + 1
UGCGCUGGGGAGCAGACCGACC-GGUCUGGUUUUUGGGCCGGGAAUCGCAAUCCAAGGUGGAAUCGGGA-GGCGGCCCAAAAGGGGG-AAGCACCGAAUUGUGU
.((.(..((((.((((((....-)))))).))))..))).......((((((((.....))).((((..-.((..(((......)))-..)).)))).))))). ( -39.60)
>DroYak_CAF1 69525 101 + 1
UGCGCUGUGGAGCAGACCGACC-GGUCUGGUUUUUGGGCCGGGAAUCGCAAUCCAAGGUGGAAUCGGGA-GGCGGCCUAGAAGGGGG-AAGCACCGAAUUGUGU
.((((..(((.(((((((....-)))))..(((((((((((....(((...(((.....)))..)))..-..)))))))))))....-..)).)))....)))) ( -36.40)
>DroAna_CAF1 83468 87 + 1
UGCGCCCGGGAGCGGACUG----GGUCUGGUUU-UGGGCUCCAAUUCGGAAUC---GGGGGAAUGGGAAUGGCAACACUGUAUGG---------CGUAUGGCGU
(((((((((((.(((((..----.))))).)))-)))))(((.((((......---....)))).)))...)))((.((((((..---------.)))))).)) ( -28.10)
>consensus
UGCGCUGGGGAGCAGACCGACC_GGUCUGGUUUUUGGGCCGGGAAUCGCAAUCCGAGGUGGAAUCGGAA_GGCGGCCCAAAAGGGGG_AAGCUCCGAAUAGUGU
.((((((.((..((((((.....)))))).(((((((((((....(((...(((.....)))..))).....)))))))))))..........))...)))))) (-26.30 = -26.97 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:16 2006