Locus 5868

Sequence ID 3R_DroMel_CAF1
Location 15,378,208 – 15,378,301
Length 93
Max. P 0.837885
window9595

overview

Window 5

Location 15,378,208 – 15,378,301
Length 93
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.34
Mean single sequence MFE -28.57
Consensus MFE -13.34
Energy contribution -14.01
Covariance contribution 0.67
Combinations/Pair 1.34
Mean z-score -2.27
Structure conservation index 0.47
SVM decision value 0.74
SVM RNA-class probability 0.837885
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15378208 93 - 27905053
GUUAAUUUAUGG---------------------CAGCAGCCAUAAAACUGUGUUGAGUGGGCUUAAAGAGCCGG-GAACUGCUGUUUGGGCAAUUCAAGUAAACCGCAUAAUUCC--
.....(((((((---------------------(....))))))))..((((((((((..(((((((.(((.(.-...).))).))))))).))))))......)))).......-- ( -29.60)
>DroPse_CAF1 175486 113 - 1
GUUAAUUUAAGGAUUCUAAAUUACUCUAGAGGGCAGAGUCCUUAAA---GAGAUGAAAGGGCAAGCAGGACUGG-UAGCUUAAGAGCCGCCAAUUAAAGCAAAUUUCAUAACCCCAA
.....((((((((((((......(((....))).))))))))))))---...((((((..((......((.(((-..(((....)))..))).))...))...))))))........ ( -27.60)
>DroSec_CAF1 131005 93 - 1
GUUAAUUUAUGG---------------------CAGCAGCCAUAAAACUGUGUUGAGUGGGCUUAAAGAGCCGG-GAACUGCUGUUUGGGCCAUUUAAGUAAACCGCAUAAUUCC--
.....(((((((---------------------(....))))))))..((((((((((((.((((((.(((.(.-...).))).))))))))))))))......)))).......-- ( -30.20)
>DroSim_CAF1 135089 93 - 1
GUUAAUUUAUGG---------------------CAGCAGCCAUAAAACUGUGUUGAGUGGGCUUAAAGAGCCGG-GAACUGCUGUUUGGGCCAUUUAAGUAAACCGCAUAAUUCC--
.....(((((((---------------------(....))))))))..((((((((((((.((((((.(((.(.-...).))).))))))))))))))......)))).......-- ( -30.20)
>DroEre_CAF1 128687 93 - 1
GUUAAUUUAUGG---------------------CAGCAGCCAUGAAACUGUGUUGAGUGGACUUAAAGAGCCGGGGAACUGCUGUUUG-GCAAUUUAAGUAAGCCGCAUAAUUCC--
.....(((((((---------------------(....))))))))..(((((.(.((..(((((((..((((((.(.....).))))-))..)))))))..)))))))).....-- ( -27.80)
>DroYak_CAF1 146370 92 - 1
GUUAAUUUAUGG---------------------CAGCAGCCAUGAAACUGUGUUGAGUGGGCUUAAAGAGCCGG-GAACUGCUGUUUG-GUAAUUUAAGUAAACCGCAUAAUUCC--
.....(((((((---------------------(....))))))))..(((((.(.((..(((((((..(((..-((((....)))))-))..)))))))..)))))))).....-- ( -26.00)
>consensus
GUUAAUUUAUGG_____________________CAGCAGCCAUAAAACUGUGUUGAGUGGGCUUAAAGAGCCGG_GAACUGCUGUUUGGGCAAUUUAAGUAAACCGCAUAAUUCC__
.....(((((((...........................))))))).....((((.(((((((((((..(((...((((....)))).)))..)))))))...)))).))))..... (-13.34 = -14.01 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:34 2006