Locus 2139

Sequence ID 3L_DroMel_CAF1
Location 5,829,480 – 5,829,573
Length 93
Max. P 0.880155
window3328 window3329

overview

Window 8

Location 5,829,480 – 5,829,573
Length 93
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 86.99
Mean single sequence MFE -27.33
Consensus MFE -26.89
Energy contribution -27.00
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -0.85
Structure conservation index 0.98
SVM decision value 0.44
SVM RNA-class probability 0.737560
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5829480 93 + 23771897
UGCGGUUUCGGGGCGACAGUUGUGCCCUCCCCCCUCAAAA-----AAAAGAAAAAGAAAAAAGACCGGCGAUUUCAACGUGGGUUGCGGCUGAGUGCC
.((((....(((((.((....)))))))....))......-----.................((((.(((.......))).))))))(((.....))) ( -24.60)
>DroSec_CAF1 37217 88 + 1
UGCGGUUUUGGGGCGACAGUUGUGCCCUCCCCCCUCAAACAAA----------AAAGAAAAAGACCCACGAUUUCAACGUGGGUUGCGGCUGAGUGCC
.((((....(((((.((....)))))))....)).........----------.........((((((((.......))))))))))(((.....))) ( -28.70)
>DroSim_CAF1 20143 98 + 1
UGCGGUUUUGGGGCGACAGUUGUGCCCUCCCCCCUCAAACAAAAAAAAAGAAAAAAGAAAAAGACCCACGAUUUCAACGUGGGUUGCGGCUGAGUGCC
.((((....(((((.((....)))))))....))............................((((((((.......))))))))))(((.....))) ( -28.70)
>consensus
UGCGGUUUUGGGGCGACAGUUGUGCCCUCCCCCCUCAAACAAA__AAAAGAAAAAAGAAAAAGACCCACGAUUUCAACGUGGGUUGCGGCUGAGUGCC
.((((....(((((.((....)))))))....))............................((((((((.......))))))))))(((.....))) (-26.89 = -27.00 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 5,829,480 – 5,829,573
Length 93
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 86.99
Mean single sequence MFE -30.37
Consensus MFE -28.80
Energy contribution -29.47
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.55
Structure conservation index 0.95
SVM decision value 0.91
SVM RNA-class probability 0.880155
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5829480 93 - 23771897
GGCACUCAGCCGCAACCCACGUUGAAAUCGCCGGUCUUUUUUCUUUUUCUUUU-----UUUUGAGGGGGGAGGGCACAACUGUCGCCCCGAAACCGCA
(((.....))).((((....)))).....((.(((.....(((((((((....-----....)))))))))((((((....)).))))....))))). ( -24.90)
>DroSec_CAF1 37217 88 - 1
GGCACUCAGCCGCAACCCACGUUGAAAUCGUGGGUCUUUUUCUUU----------UUUGUUUGAGGGGGGAGGGCACAACUGUCGCCCCAAAACCGCA
(((.....)))((.(((((((.......)))))))..........----------...((((..((((.((.((.....)).)).)))).)))).)). ( -33.10)
>DroSim_CAF1 20143 98 - 1
GGCACUCAGCCGCAACCCACGUUGAAAUCGUGGGUCUUUUUCUUUUUUCUUUUUUUUUGUUUGAGGGGGGAGGGCACAACUGUCGCCCCAAAACCGCA
(((.....)))((.(((((((.......))))))).......................((((..((((.((.((.....)).)).)))).)))).)). ( -33.10)
>consensus
GGCACUCAGCCGCAACCCACGUUGAAAUCGUGGGUCUUUUUCUUUUUUCUUUU__UUUGUUUGAGGGGGGAGGGCACAACUGUCGCCCCAAAACCGCA
(((.....)))((.(((((((.......))))))).............................((((.((.((.....)).)).))))......)). (-28.80 = -29.47 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:19 2006