Locus 3517

Sequence ID 2L_DroMel_CAF1
Location 10,282,501 – 10,282,621
Length 120
Max. P 0.982730
window5553 window5554

overview

Window 3

Location 10,282,501 – 10,282,621
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -47.40
Consensus MFE -47.64
Energy contribution -47.20
Covariance contribution -0.44
Combinations/Pair 1.05
Mean z-score -2.63
Structure conservation index 1.01
SVM decision value 1.92
SVM RNA-class probability 0.982730
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10282501 120 + 22407834
AGGCCUUCAUUUGCUGAGCGAUUCCGUCCUGCAGGAUGAAGUUCAUCAGCAGUUCGCAGUACGCUUCCAGGUUGUCGAUGGUGACGUUCACUGACGAUCCAUUGGGCAGCAAUUCGGCCU
(((((.....(((((((((((((.((..((((..((((.....)))).))))..)).))).))))(((((((((((((((....))))....)))))))...))))))))))...))))) ( -47.60)
>DroSec_CAF1 2710 120 + 1
AGGCCUUCAUUUGCUGAGCGAUUCCGUCCUGCAGGAUGAAGUUCAUCAGCAGUUCGCAGUACGCUUCCAGGUUGUCGAUGGUGACGUUCACUGACGAUCCAUUGGGCAGCAGUUCGGCCU
(((((.....(((((((((((((.((..((((..((((.....)))).))))..)).))).))))(((((((((((((((....))))....)))))))...))))))))))...))))) ( -47.30)
>DroSim_CAF1 2477 120 + 1
AGGCCUUCAUUUGCUGAGCGAUUCCGUCCUGCAGGAUGAAGUUCAUCAGCAGUUCGCAGUACGCUUCCAAGUUGUCGAUGGUGACGUUCACUGACGAUCCAUUGGGCAGCAGUUCGGCCU
(((((.....(((((((((((((.((..((((..((((.....)))).))))..)).))).))))(((((...((((.(((((.....))))).))))...)))))))))))...))))) ( -47.30)
>consensus
AGGCCUUCAUUUGCUGAGCGAUUCCGUCCUGCAGGAUGAAGUUCAUCAGCAGUUCGCAGUACGCUUCCAGGUUGUCGAUGGUGACGUUCACUGACGAUCCAUUGGGCAGCAGUUCGGCCU
(((((.....(((((((((((((.((..((((..((((.....)))).))))..)).))).))))(((((...((((.(((((.....))))).))))...)))))))))))...))))) (-47.64 = -47.20 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 10,282,501 – 10,282,621
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -40.23
Consensus MFE -39.25
Energy contribution -39.03
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.71
Structure conservation index 0.98
SVM decision value 0.44
SVM RNA-class probability 0.737930
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10282501 120 - 22407834
AGGCCGAAUUGCUGCCCAAUGGAUCGUCAGUGAACGUCACCAUCGACAACCUGGAAGCGUACUGCGAACUGCUGAUGAACUUCAUCCUGCAGGACGGAAUCGCUCAGCAAAUGAAGGCCU
(((((...((((((.(((..((.(((...(((.....)))...)))...))))).((((...(.((..((((.((((.....))))..))))..)).)..)))))))))).....))))) ( -40.70)
>DroSec_CAF1 2710 120 - 1
AGGCCGAACUGCUGCCCAAUGGAUCGUCAGUGAACGUCACCAUCGACAACCUGGAAGCGUACUGCGAACUGCUGAUGAACUUCAUCCUGCAGGACGGAAUCGCUCAGCAAAUGAAGGCCU
(((((....(((((.(((..((.(((...(((.....)))...)))...))))).((((...(.((..((((.((((.....))))..))))..)).)..)))))))))......))))) ( -39.60)
>DroSim_CAF1 2477 120 - 1
AGGCCGAACUGCUGCCCAAUGGAUCGUCAGUGAACGUCACCAUCGACAACUUGGAAGCGUACUGCGAACUGCUGAUGAACUUCAUCCUGCAGGACGGAAUCGCUCAGCAAAUGAAGGCCU
(((((....(((((.((((..(.(((...(((.....)))...))))...)))).((((...(.((..((((.((((.....))))..))))..)).)..)))))))))......))))) ( -40.40)
>consensus
AGGCCGAACUGCUGCCCAAUGGAUCGUCAGUGAACGUCACCAUCGACAACCUGGAAGCGUACUGCGAACUGCUGAUGAACUUCAUCCUGCAGGACGGAAUCGCUCAGCAAAUGAAGGCCU
(((((....(((((.(((..((.(((...(((.....)))...)))...))))).((((...(.((..((((.((((.....))))..))))..)).)..)))))))))......))))) (-39.25 = -39.03 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:23 2006