Locus 2105

Sequence ID 2L_DroMel_CAF1
Location 5,672,685 – 5,672,782
Length 97
Max. P 0.716559
window3395 window3396

overview

Window 5

Location 5,672,685 – 5,672,782
Length 97
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 84.92
Mean single sequence MFE -34.82
Consensus MFE -24.97
Energy contribution -27.72
Covariance contribution 2.75
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.72
SVM decision value 0.39
SVM RNA-class probability 0.716559
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5672685 97 + 22407834
GGGCGCGCUUCCUGCAAAUGUUUGCUUUUUUGCGAUGGCACUAAGCGAGGGAGCAGGCCCAACCACCACCCACU-----AGUUUUAUGGCACAGCUGGGUGG
((((..(((((((((...(((((((......))))..)))....)).)))))))..)))).....(((((((((-----.(((....)))..)).))))))) ( -38.30)
>DroSec_CAF1 117789 102 + 1
GGGCGCGCUUCCUGCAAAUGUUUGCUUUUUUGCGAUGGCACUAAGCGAGGGAGCAGGCCCAACCACCACCCACUUUAUACGUUUUAUGGCACAGCUGGGUGG
((((..(((((((((...(((((((......))))..)))....)).)))))))..)))).....((((((((((((((.....)))))...)).))))))) ( -37.40)
>DroSim_CAF1 117420 97 + 1
GGGCGCGCUUCCUGCAAAUGUUUGCUUUUUUGCGAUGGCACUAAGCGAGGGAGCAGGCCCAACCACCACCCACU-----AGUUUUAUGGCACAGCUGGGUGG
((((..(((((((((...(((((((......))))..)))....)).)))))))..)))).....(((((((((-----.(((....)))..)).))))))) ( -38.30)
>DroYak_CAF1 119060 81 + 1
GGGCGCGCUUCCUGCAAAUGUUUGCUUUUUUGCGACAGCACUAAGCCA----------------CCCACCCACU-----AGUUUUAUGGCCCAAAUGGGCGG
(((.(.((((..(((...((((.((......)))))))))..))))).----------------))).......-----.........((((....)))).. ( -25.30)
>consensus
GGGCGCGCUUCCUGCAAAUGUUUGCUUUUUUGCGAUGGCACUAAGCGAGGGAGCAGGCCCAACCACCACCCACU_____AGUUUUAUGGCACAGCUGGGUGG
((((..(((((((((...(((((((......))))..)))....)).)))))))..)))).....(((((((........(((....))).....))))))) (-24.97 = -27.72 +   2.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 5,672,685 – 5,672,782
Length 97
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 84.92
Mean single sequence MFE -32.48
Consensus MFE -22.09
Energy contribution -24.22
Covariance contribution 2.13
Combinations/Pair 1.07
Mean z-score -1.56
Structure conservation index 0.68
SVM decision value 0.05
SVM RNA-class probability 0.559943
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5672685 97 - 22407834
CCACCCAGCUGUGCCAUAAAACU-----AGUGGGUGGUGGUUGGGCCUGCUCCCUCGCUUAGUGCCAUCGCAAAAAAGCAAACAUUUGCAGGAAGCGCGCCC
(((((((.((((........)).-----))))))))).....((((.((((.(((.((..((((.....((......))...)))).))))).)))).)))) ( -33.80)
>DroSec_CAF1 117789 102 - 1
CCACCCAGCUGUGCCAUAAAACGUAUAAAGUGGGUGGUGGUUGGGCCUGCUCCCUCGCUUAGUGCCAUCGCAAAAAAGCAAACAUUUGCAGGAAGCGCGCCC
(((((((..(((((........)))))...))))))).....((((.((((.(((.((..((((.....((......))...)))).))))).)))).)))) ( -34.50)
>DroSim_CAF1 117420 97 - 1
CCACCCAGCUGUGCCAUAAAACU-----AGUGGGUGGUGGUUGGGCCUGCUCCCUCGCUUAGUGCCAUCGCAAAAAAGCAAACAUUUGCAGGAAGCGCGCCC
(((((((.((((........)).-----))))))))).....((((.((((.(((.((..((((.....((......))...)))).))))).)))).)))) ( -33.80)
>DroYak_CAF1 119060 81 - 1
CCGCCCAUUUGGGCCAUAAAACU-----AGUGGGUGGG----------------UGGCUUAGUGCUGUCGCAAAAAAGCAAACAUUUGCAGGAAGCGCGCCC
(((((((((.((.........))-----))))))))).----------------.(((...(((((..((((((..........))))).)..)))))))). ( -27.80)
>consensus
CCACCCAGCUGUGCCAUAAAACU_____AGUGGGUGGUGGUUGGGCCUGCUCCCUCGCUUAGUGCCAUCGCAAAAAAGCAAACAUUUGCAGGAAGCGCGCCC
(((((((.((..................))))))))).....((((.((((.(((.((..((((.....((......))...)))).))))).)))).)))) (-22.09 = -24.22 +   2.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:39 2006