Locus 7311

Sequence ID X_DroMel_CAF1
Location 18,221,813 – 18,221,918
Length 105
Max. P 0.968785
window11972 window11973

overview

Window 2

Location 18,221,813 – 18,221,918
Length 105
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.51
Mean single sequence MFE -36.59
Consensus MFE -28.93
Energy contribution -29.93
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.94
Structure conservation index 0.79
SVM decision value 0.31
SVM RNA-class probability 0.682744
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18221813 105 + 22224390
---------------CACAUCUGGGUGGCUAUAAAAGCCACCAGCCGGCUCCGGAUUCUCCACAGUCGAGCUUCAACUGUUUCUCAGAUGAUGUCGCCGCAUAAGACCCACACCUGGCUG
---------------..(((((((((((((.....)))))))((((((((..((.....))..))))).)))............)))))).....((((...............)))).. ( -34.86)
>DroSim_CAF1 1 105 + 1
---------------CACAUCUGGGUGGCUAUAAAAGCCACCAGCCGGCUCCGGAUUCUCCACAGUCUUUCUUCAACUGUUUCUGAGAUGAUGUCGCCGCGCAAGACCCACACCUGGCUG
---------------........(((((((.....)))))))(((((((..((...((((.(((((.........)))))....))))...))..))).(....)..........)))). ( -33.90)
>DroYak_CAF1 1 120 + 1
ACAUCUGGGUAUGUACAUAUCUGGGUGGCUAUAAAAGCCACCAGCCGGCUCCGGAUUCUCCACAGUCGAGCUUCAACUGUUCCUGAGAUGAUGUCGCCGCGUGAAACCCACACCUGGCUG
....(..(((((....)))))..)((((((.....))))))((((((((..((...((((.(((((.(.....).)))))....))))...))..)))..(((.....)))....))))) ( -41.00)
>consensus
_______________CACAUCUGGGUGGCUAUAAAAGCCACCAGCCGGCUCCGGAUUCUCCACAGUCGAGCUUCAACUGUUUCUGAGAUGAUGUCGCCGCGUAAGACCCACACCUGGCUG
.......................(((((((.....)))))))(((((((..((...((((.(((((.(.....).)))))....))))...))..))).(....)..........)))). (-28.93 = -29.93 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,221,813 – 18,221,918
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 85.51
Mean single sequence MFE -41.87
Consensus MFE -39.56
Energy contribution -39.57
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -1.96
Structure conservation index 0.94
SVM decision value 1.63
SVM RNA-class probability 0.968785
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18221813 105 - 22224390
CAGCCAGGUGUGGGUCUUAUGCGGCGACAUCAUCUGAGAAACAGUUGAAGCUCGACUGUGGAGAAUCCGGAGCCGGCUGGUGGCUUUUAUAGCCACCCAGAUGUG---------------
.((((.(((.((((((((.(((((((((.(((.(((.....))).))).).))).)))))))).)))))..)))))))(((((((.....)))))))........--------------- ( -40.70)
>DroSim_CAF1 1 105 - 1
CAGCCAGGUGUGGGUCUUGCGCGGCGACAUCAUCUCAGAAACAGUUGAAGAAAGACUGUGGAGAAUCCGGAGCCGGCUGGUGGCUUUUAUAGCCACCCAGAUGUG---------------
.((((..(((..(...)..)))(((..(....((((....((((((.......)))))).))))....)..)))))))(((((((.....)))))))........--------------- ( -39.70)
>DroYak_CAF1 1 120 - 1
CAGCCAGGUGUGGGUUUCACGCGGCGACAUCAUCUCAGGAACAGUUGAAGCUCGACUGUGGAGAAUCCGGAGCCGGCUGGUGGCUUUUAUAGCCACCCAGAUAUGUACAUACCCAGAUGU
.((((..(((((.....)))))(((..(....((((....(((((((.....))))))).))))....)..)))))))(((((((.....))))))).........((((......)))) ( -45.20)
>consensus
CAGCCAGGUGUGGGUCUUACGCGGCGACAUCAUCUCAGAAACAGUUGAAGCUCGACUGUGGAGAAUCCGGAGCCGGCUGGUGGCUUUUAUAGCCACCCAGAUGUG_______________
.((((..(((((.....)))))(((..(....((((....(((((((.....))))))).))))....)..)))))))(((((((.....)))))))....................... (-39.56 = -39.57 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:41 2006