Locus 6050

Sequence ID 3L_DroMel_CAF1
Location 16,119,738 – 16,119,856
Length 118
Max. P 0.699327
window9688 window9689

overview

Window 8

Location 16,119,738 – 16,119,856
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.54
Mean single sequence MFE -36.10
Consensus MFE -34.90
Energy contribution -34.90
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.97
SVM decision value -0.04
SVM RNA-class probability 0.514055
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16119738 118 + 23771897
UUUUUCGCC--CGGUUUUGCUUGCGGCCAAUGACUCAUUGACCUGGUUUAGGUUCCCUAUGUCUAGGAUUUGCAGUUCUCCAGCGCUGCUUACCCCAUAUAACUGGGUCAGUGGGCGUGU
.....((((--(((((........))))........(((((((..(((..((...((((....))))....(((((.(....).))))).....))....)))..))))))))))))... ( -38.50)
>DroSec_CAF1 5482 119 + 1
UUUUUUACC-CCCAGUUUGCUUGCGGCCAAUGACUCAUUGACCUGGUUUAGGUUCCCUAUGUCUAGGAUUUGCAGUUCUCCAGCGCUGCUUACCCCAUAUAACUGGGUCAGUGGGCGUGU
.......((-.(.((....)).).))...(((.((((((((((..(((..((...((((....))))....(((((.(....).))))).....))....)))..))))))))))))).. ( -34.90)
>DroSim_CAF1 4835 120 + 1
UUUUUUACCCCCCAGUUUGCUUGCGGCCAAUGACUCAUUGACCUGGUUUAGGUUCCCUAUGUCUAGGAUUUGCAGUUCUCCAGCGCUGCUUACCCCACAUAACUGGGUCAGUGGGCGUGU
......................(((.(((.(((((((....(((((..((((...))))...)))))....(((((.(....).)))))..............))))))).))).))).. ( -34.90)
>consensus
UUUUUUACC_CCCAGUUUGCUUGCGGCCAAUGACUCAUUGACCUGGUUUAGGUUCCCUAUGUCUAGGAUUUGCAGUUCUCCAGCGCUGCUUACCCCAUAUAACUGGGUCAGUGGGCGUGU
......................(((.(((.(((((((....(((((..((((...))))...)))))....(((((.(....).)))))..............))))))).))).))).. (-34.90 = -34.90 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,119,738 – 16,119,856
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.54
Mean single sequence MFE -38.14
Consensus MFE -30.69
Energy contribution -31.80
Covariance contribution 1.11
Combinations/Pair 1.03
Mean z-score -2.68
Structure conservation index 0.80
SVM decision value 0.35
SVM RNA-class probability 0.699327
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16119738 118 - 23771897
ACACGCCCACUGACCCAGUUAUAUGGGGUAAGCAGCGCUGGAGAACUGCAAAUCCUAGACAUAGGGAACCUAAACCAGGUCAAUGAGUCAUUGGCCGCAAGCAAAACCG--GGCGAAAAA
...(((((.(((.((((......)))).....))).(((.......(((...(((((....)))))...........((((((((...))))))))))))))......)--))))..... ( -37.91)
>DroSec_CAF1 5482 119 - 1
ACACGCCCACUGACCCAGUUAUAUGGGGUAAGCAGCGCUGGAGAACUGCAAAUCCUAGACAUAGGGAACCUAAACCAGGUCAAUGAGUCAUUGGCCGCAAGCAAACUGGG-GGUAAAAAA
....((((......((((((...((((....((((..(....)..))))...(((((....)))))..)))).....((((((((...)))))))).......)))))))-)))...... ( -35.60)
>DroSim_CAF1 4835 120 - 1
ACACGCCCACUGACCCAGUUAUGUGGGGUAAGCAGCGCUGGAGAACUGCAAAUCCUAGACAUAGGGAACCUAAACCAGGUCAAUGAGUCAUUGGCCGCAAGCAAACUGGGGGGUAAAAAA
....((((.....(((((((.(((.((((..((((..(....)..))))...(((((....))))).))))......((((((((...))))))))....))))))))))))))...... ( -40.90)
>consensus
ACACGCCCACUGACCCAGUUAUAUGGGGUAAGCAGCGCUGGAGAACUGCAAAUCCUAGACAUAGGGAACCUAAACCAGGUCAAUGAGUCAUUGGCCGCAAGCAAACUGGG_GGUAAAAAA
....(((......(((((((...((((....((((..(....)..))))...(((((....)))))..)))).....((((((((...)))))))).......))))))).)))...... (-30.69 = -31.80 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:04 2006