Locus 605

Sequence ID X_DroMel_CAF1
Location 1,679,516 – 1,679,661
Length 145
Max. P 0.516338
window980 window981

overview

Window 0

Location 1,679,516 – 1,679,636
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.59
Mean single sequence MFE -27.97
Consensus MFE -22.22
Energy contribution -21.67
Covariance contribution -0.55
Combinations/Pair 1.10
Mean z-score -1.66
Structure conservation index 0.79
SVM decision value -0.03
SVM RNA-class probability 0.516338
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1679516 120 + 22224390
CUAUCACGUUAACGUUUCUGGUGCAGAGUUCUUACCAGAAUUGCCAUUUCAGUGACCAACACUACUGGCUCCUCUGGUAUCGUCAGGAUGGCAACCCUUCCUGAUAGUGCCUUCACUUUA
.....(((....)))((((((((.((....))))))))))..((((....((((.....))))..))))......(((((..((((((.((....)).))))))..)))))......... ( -37.80)
>DroSec_CAF1 19747 107 + 1
-------------GUUUCUGGUGUAGAGUUCUUAGCAGAAUUGUAAUUUCAGUGACCAACACUACUGGCUCCUCUGUUAUCGAUAGGAUGACAAUCCUUCCUGAAAGUGCUUUCACUUUA
-------------......((((.(((((.(((((((((...((......((((.....))))....))...)))))).(((..(((((....)))))...)))))).)))))))))... ( -23.90)
>DroSim_CAF1 13599 107 + 1
-------------GUUUCUGGUGUAGAGUUCUUAGCAGAAUUGUAAUUUCAGUGACCAACACUACUGGCUCCUCUGUUAUCGAUAGGAUGACAACCCUUCCUGAAAAUGCUUUCACUUUA
-------------..(((((.((.((....)))).)))))..(((.((((((.(((((.......)))......(((((((.....))))))).....)))))))).))).......... ( -22.20)
>consensus
_____________GUUUCUGGUGUAGAGUUCUUAGCAGAAUUGUAAUUUCAGUGACCAACACUACUGGCUCCUCUGUUAUCGAUAGGAUGACAACCCUUCCUGAAAGUGCUUUCACUUUA
...................((((.(((((...(((((((...((.....(((((........)))))))...)))))))....(((((.(......).))))).....)))))))))... (-22.22 = -21.67 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,679,556 – 1,679,661
Length 105
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 84.44
Mean single sequence MFE -29.73
Consensus MFE -19.59
Energy contribution -19.27
Covariance contribution -0.33
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.66
SVM decision value -0.06
SVM RNA-class probability 0.505359
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1679556 105 - 22224390
---------------AAACACAAUGACGAGCACUUCUCAAUAAAGUGAAGGCACUAUCAGGAAGGGUUGCCAUCCUGACGAUACCAGAGGAGCCAGUAGUGUUGGUCACUGAAAUGGCAA
---------------.....((.((((.((((((.((((......))).(((....((((((.((....)).)))))).....((...)).))).).)))))).)))).))......... ( -30.40)
>DroSec_CAF1 19774 120 - 1
UCUGACUAGGACUGCAAACACAAUGACAAGCAUAUCUCAAUAAAGUGAAAGCACUUUCAGGAAGGAUUGUCAUCCUAUCGAUAACAGAGGAGCCAGUAGUGUUGGUCACUGAAAUUACAA
..(((((((.(((((........((((((.(...(((....((((((....))))))..)))..).))))))((((...........))))....))))).)))))))............ ( -29.50)
>DroSim_CAF1 13626 120 - 1
UCUGACUAGGACUGCAAACACAAUGACAAGCAUAUCUCAAUAAAGUGAAAGCAUUUUCAGGAAGGGUUGUCAUCCUAUCGAUAACAGAGGAGCCAGUAGUGUUGGUCACUGAAAUUACAA
..(((((((.(((((........((((((.(...(((....((((((....))))))..)))..).))))))((((...........))))....))))).)))))))............ ( -29.30)
>consensus
UCUGACUAGGACUGCAAACACAAUGACAAGCAUAUCUCAAUAAAGUGAAAGCACUUUCAGGAAGGGUUGUCAUCCUAUCGAUAACAGAGGAGCCAGUAGUGUUGGUCACUGAAAUUACAA
....................((.((((.(((((..(((...((((((....))))))..(..(((((....)))))..)..........)))......))))).)))).))......... (-19.59 = -19.27 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:16 2006