Locus 1955

Sequence ID X_DroMel_CAF1
Location 5,356,257 – 5,356,356
Length 99
Max. P 0.998386
window3177 window3178

overview

Window 7

Location 5,356,257 – 5,356,356
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 78.18
Mean single sequence MFE -16.03
Consensus MFE -14.45
Energy contribution -14.23
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -0.46
Structure conservation index 0.90
SVM decision value 0.33
SVM RNA-class probability 0.690935
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5356257 99 + 22224390
AUGUUUUUUUUUUUUUUUUGUUUUGCACUUGCCCAUUGUUUUGGUUUGGUCUGCCGGCCAGCACCAGCCACUAAGCCAGCAACGACCAUACCCACCACC
........................((....))..........(((.((((((((.(((..((....))......))).)))..))))).)))....... ( -18.70)
>DroSec_CAF1 31531 77 + 1
UUGUUUU---------------UUGCACUUGCCCAUUGUUUUGGUUUGGUCUGCCGGCCAGCAUCACCCACUAAGCCAACAACGACCCUGCU-------
.......---------------........((...(((((((((((((((.(((......)))......)))))))))).)))))....)).------- ( -14.70)
>DroSim_CAF1 29029 77 + 1
UUGUUUU---------------UUGCACUUGCCCAUUGUUUUGGUUUGGUCUGCCGGCCAGCACCACCCACUAAGCCAACAACGACCCAGCC-------
.......---------------........((...(((((((((((((((.....((......))....)))))))))).)))))....)).------- ( -14.70)
>consensus
UUGUUUU_______________UUGCACUUGCCCAUUGUUUUGGUUUGGUCUGCCGGCCAGCACCACCCACUAAGCCAACAACGACCCUGCC_______
........................((....))...(((((((((((((((.(((......)))......)))))))))).))))).............. (-14.45 = -14.23 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,356,257 – 5,356,356
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 78.18
Mean single sequence MFE -25.33
Consensus MFE -23.01
Energy contribution -22.57
Covariance contribution -0.44
Combinations/Pair 1.10
Mean z-score -2.27
Structure conservation index 0.91
SVM decision value 3.09
SVM RNA-class probability 0.998386
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5356257 99 - 22224390
GGUGGUGGGUAUGGUCGUUGCUGGCUUAGUGGCUGGUGCUGGCCGGCAGACCAAACCAAAACAAUGGGCAAGUGCAAAACAAAAAAAAAAAAAAAACAU
.(((((.(((.(((((..((((((((....(((....)))))))))))))))).)))...)).....((....)).....................))) ( -30.20)
>DroSec_CAF1 31531 77 - 1
-------AGCAGGGUCGUUGUUGGCUUAGUGGGUGAUGCUGGCCGGCAGACCAAACCAAAACAAUGGGCAAGUGCAA---------------AAAACAA
-------.(((.((((..((((((((.((((.....))))))))))))))))...(((......))).....)))..---------------....... ( -23.80)
>DroSim_CAF1 29029 77 - 1
-------GGCUGGGUCGUUGUUGGCUUAGUGGGUGGUGCUGGCCGGCAGACCAAACCAAAACAAUGGGCAAGUGCAA---------------AAAACAA
-------.((..((((..((((((((.(((.......)))))))))))))))...(((......)))))........---------------....... ( -22.00)
>consensus
_______GGCAGGGUCGUUGUUGGCUUAGUGGGUGGUGCUGGCCGGCAGACCAAACCAAAACAAUGGGCAAGUGCAA_______________AAAACAA
........((..((((..((((((((.(((.......)))))))))))))))...(((......))))).............................. (-23.01 = -22.57 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:43 2006