Locus 6602

Sequence ID 3L_DroMel_CAF1
Location 17,544,399 – 17,544,505
Length 106
Max. P 0.628431
window10746

overview

Window 6

Location 17,544,399 – 17,544,505
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 88.36
Mean single sequence MFE -21.66
Consensus MFE -15.35
Energy contribution -17.10
Covariance contribution 1.75
Combinations/Pair 1.00
Mean z-score -1.72
Structure conservation index 0.71
SVM decision value 0.19
SVM RNA-class probability 0.628431
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17544399 106 + 23771897
UAAGGCAGUUAAGACAGUUAAGUGUGCUGGAGUAAUAAGCCAGAGAUAAAUUUAUCGUGUGAAGUAAUUAACCUUGCGUGAUAAAGGAGUGAGGGCAUUAAAUGAA
.......((((...((((.......))))...))))..(((.........(((((((((..(.((.....)).)..)))))))))........))).......... ( -19.73)
>DroSec_CAF1 30316 106 + 1
UAAGGCUGUUAAGACAGUUAAGUAUGCUAGAGUAAUAAGCCAGAGAUAAAUUUAUCGUGUGAAGUAAUUAACGUUGCGUGAUAAAGGAUUGAUGGCAUUGAAUGAA
...((((((....)))))).....(((....)))....((((..(((...(((((((((..(.((.....)).)..)))))))))..)))..)))).......... ( -24.10)
>DroSim_CAF1 32778 106 + 1
UAAGGCUGUUAAGACAGUUAAGUAUGCUGGAGUAAUAAGCCAGAGAUAAAUUUAUCGUGUGAAGUAAUUAACGUUGCGUGAUAAAGGAUUGAUAGCAUUGAAUGAA
....((((((((..(...........((((.........)))).......(((((((((..(.((.....)).)..))))))))))..)))))))).......... ( -23.50)
>DroYak_CAF1 32583 106 + 1
UAAGGCAGCUAAUGCAGUUAAGUAUGCUGAAGUAAUAAGCCAGAGAUAAUUGUAUCUUGUGUGGUAAUAAACGUUGCGUGAUAAAGGAGUUAAGGCGUUAAAAAAU
.....((((..((((......)))))))).........((((((((((....))))))...))))....((((((...((((......)))).))))))....... ( -19.30)
>consensus
UAAGGCAGUUAAGACAGUUAAGUAUGCUGGAGUAAUAAGCCAGAGAUAAAUUUAUCGUGUGAAGUAAUUAACGUUGCGUGAUAAAGGAGUGAUGGCAUUAAAUGAA
...((((((((...((((.......))))...)))).)))).........((((((((((((.((.....)).))))))))))))..................... (-15.35 = -17.10 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:25 2006