Locus 2478

Sequence ID 3R_DroMel_CAF1
Location 6,809,412 – 6,809,525
Length 113
Max. P 0.625633
window4060

overview

Window 0

Location 6,809,412 – 6,809,525
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 83.18
Mean single sequence MFE -43.68
Consensus MFE -28.43
Energy contribution -28.63
Covariance contribution 0.20
Combinations/Pair 1.33
Mean z-score -2.25
Structure conservation index 0.65
SVM decision value 0.19
SVM RNA-class probability 0.625633
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6809412 113 - 27905053
UCCGGCAUUGAGAACCAGUCUCAGACGACG-------GGCUUGAUUGAAAAGCCCUCGAAAGACGCUGGGAAUUUGCUCGGCUAAUGCCGGGGCAUUUGGUUGGUGUUUCCCGGUGAUUC
.......((((((.....)))))).(((.(-------(((((.......))))))))).....(((((((((....((((((....))))))(((((.....)))))))))))))).... ( -45.00)
>DroSec_CAF1 67665 113 - 1
UCCGGCAUUGAGAACCAGUCUCAGACAGCG-------GGCUUGAUUGGAAAGCCCUCGAAAGACGCUGGGAAUUUGCUCGGCUAAUGCUGAGGCAUUUGGUUGGUUUUUCCCGGUGAUUC
.((((....((((((((..(((...(((((-------(((((.......))))))((....)).)))).))...((((((((....))))).)))...)..)))))))).))))...... ( -45.30)
>DroSim_CAF1 73239 113 - 1
UCCGGCAUUGAGAACCAGUCUCAGACAGCG-------GGCUUGAUUGGAAAGCCCUCGAAAGACGCUGGGAAUUUGCUCGGCUAAUGCUGAGGCAUUUGGUUGGUUUUUCCCGGUGAUUC
.((((....((((((((..(((...(((((-------(((((.......))))))((....)).)))).))...((((((((....))))).)))...)..)))))))).))))...... ( -45.30)
>DroEre_CAF1 53383 113 - 1
UCCGGCACUGAGCACGAGUCUCAGACGGCG-------GGCUUGAUUGAAAAGCCCUCGAAAGACGCUGGGUAUUUGCUCGGCUAAUGCUGAGGCAUUCGGUUGGUGUUUCCCGGUGAUUC
.((((((((.(((.((((((((((.(((.(-------(((((.......)))))))))......(((((((....))))))).....)))))))..))))))))))....))))...... ( -44.90)
>DroYak_CAF1 66324 119 - 1
UCCGGCAUCGAGC-CAAGUCUCAGACAGCGAGUCUCAGGCUUGAUUGAAAAGCCCUCGAAAGACGCUGGGUAUUUGCUCGGCUAAUGCCGAGGCAUUCGGUUGGUGUUUCCCGGUGAUUC
...(((.((((..-(((((((.((((.....)))).))))))).))))...))).((....))(((((((......((((((....))))))(((((.....)))))..))))))).... ( -46.40)
>DroAna_CAF1 25594 104 - 1
UCUCCGAUUGAGACCCGGUCUGAGACU--C-------GGCUUGAUUGCAAAGCUCUCGAAAGUGCCGGGGAAUUUGUUCAGUUAAUGCCCGGGCAU-------GUGUUGCUUGGCAAUUU
((((.(((((.....))))).))))..--.-------.....((((((.((((...((...(((((.(((...(((......)))..))).)))))-------.))..)))).)))))). ( -35.20)
>consensus
UCCGGCAUUGAGAACCAGUCUCAGACAGCG_______GGCUUGAUUGAAAAGCCCUCGAAAGACGCUGGGAAUUUGCUCGGCUAAUGCCGAGGCAUUUGGUUGGUGUUUCCCGGUGAUUC
.((((..((((((.....)))))).(((((.......(((((.......))))).((....)))))))......((((((((....))))).)))...............))))...... (-28.43 = -28.63 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:23 2006