Locus 2028

Sequence ID 3L_DroMel_CAF1
Location 5,588,099 – 5,588,195
Length 96
Max. P 0.593361
window3170

overview

Window 0

Location 5,588,099 – 5,588,195
Length 96
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 85.32
Mean single sequence MFE -17.95
Consensus MFE -13.45
Energy contribution -14.45
Covariance contribution 1.00
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.75
SVM decision value 0.12
SVM RNA-class probability 0.593361
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5588099 96 - 23771897
AUU---UUUUUGUUGUUUAUUUUUAAUAAAGGAUGUUUACCGUUGCGAACAAUUUGCACGGUUUAGAUUUCAGUCAUCUU--UUUCUAUGCGAACCUUUUU
..(---(((((((((........)))))))))).(((((((((.((((.....)))))))))...(((....))).....--.........))))...... ( -15.10)
>DroSec_CAF1 7550 92 - 1
AUU---UUU----GAUUUAUUUUUAAUAAAGGAUGUUUACCGUUGUGAACAAUUUGCACGGCUUAGAUUUCAGUCAUCUU--UUUCUGUGCGAACCUUUUU
...---...----..............(((((.(((((((....))))))).(((((((((...((((.......)))).--...)))))))))))))).. ( -21.70)
>DroSim_CAF1 6993 92 - 1
AUU---UUU----GAUUUAUUUUUAAUAAAGGAUGUUUACCGUUGUGAACAAUUUGCACGGGUUAGAUUUCAGUCAUCUU--UUUAUGUGCGAACCUUUUU
...---...----..............(((((.(((((((....))))))).((((((((....((((.......)))).--....))))))))))))).. ( -19.80)
>DroYak_CAF1 6395 94 - 1
GUUUAUUUU------UUUGGUUUUAAUAAAGGAUGUGGACCGUUGUGAACAAUUUGCACGGCUUAUGUUUCAGUAGUGUUCAUUUCUAUGCGAACC-UUUU
.........------...(((((.......(((.(((((((((((((.........)))))).(((......)))).)))))).)))....)))))-.... ( -15.20)
>consensus
AUU___UUU____GAUUUAUUUUUAAUAAAGGAUGUUUACCGUUGUGAACAAUUUGCACGGCUUAGAUUUCAGUCAUCUU__UUUCUAUGCGAACCUUUUU
...........................(((((.(((((((....))))))).(((((((((...((((.......))))......)))))))))))))).. (-13.45 = -14.45 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:47 2006