Locus 2093

Sequence ID X_DroMel_CAF1
Location 5,700,970 – 5,701,069
Length 99
Max. P 0.951244
window3404 window3405

overview

Window 4

Location 5,700,970 – 5,701,069
Length 99
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 78.38
Mean single sequence MFE -21.38
Consensus MFE -13.10
Energy contribution -12.91
Covariance contribution -0.19
Combinations/Pair 1.13
Mean z-score -1.94
Structure conservation index 0.61
SVM decision value 0.55
SVM RNA-class probability 0.779466
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5700970 99 + 22224390
CA-------AUCAUUUCCCCCCUUCACACAGCCAUCUCGAUUUUUUCCA--CCCACUGGCUAAAAUUGGCUUUAGCCAACUGCUGCAGUGGGCCGUGCGAUUUUGCUU
..-------..............((.(((.(((.....((.....))..--..(((((.(.....(((((....))))).....))))))))).))).))........ ( -22.80)
>DroSec_CAF1 22186 84 + 1
CA-------AUCAUUUCC--CCUUCACACAGCCACCUCGAUUU-UUCCA--CCCACUGGCCAAAAUUGGCUUU-----------GCAGUGGGCCGUGCGAU-UUGCUU
..-------.........--...((.(((.(((.....((...-.))..--..(((((((((....))))...-----------.)))))))).))).)).-...... ( -19.80)
>DroSim_CAF1 25498 84 + 1
CA-------AUCAUUUCC--CCUUCACACAGCCACCUCGAUUU-UUCCA--CCCACUGGCCAAAAUUGGCUUU-----------GCAGUGGGCCGUGCGAU-UUGCUU
..-------.........--...((.(((.(((.....((...-.))..--..(((((((((....))))...-----------.)))))))).))).)).-...... ( -19.80)
>DroEre_CAF1 20141 96 + 1
CAAUCUGCAAUCAUAU-------CCAACCAACCACCUCGAUUU-UUCCACACCCACUGACUGAAAUUGGCUUUAGCCGCC---UGCAGUGGGGCGUGCGAU-UUGCUU
......((((((....-------...............((...-.))(((.(((((((.(......((((....))))..---.))))))))..))).)).-)))).. ( -23.10)
>consensus
CA_______AUCAUUUCC__CCUUCACACAGCCACCUCGAUUU_UUCCA__CCCACUGGCCAAAAUUGGCUUU___________GCAGUGGGCCGUGCGAU_UUGCUU
.............................................((((..(((((((((((....))))...............)))))))...)).))........ (-13.10 = -12.91 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 5,700,970 – 5,701,069
Length 99
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 78.38
Mean single sequence MFE -29.00
Consensus MFE -16.99
Energy contribution -17.86
Covariance contribution 0.87
Combinations/Pair 1.10
Mean z-score -2.39
Structure conservation index 0.59
SVM decision value 1.41
SVM RNA-class probability 0.951244
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5700970 99 - 22224390
AAGCAAAAUCGCACGGCCCACUGCAGCAGUUGGCUAAAGCCAAUUUUAGCCAGUGGG--UGGAAAAAAUCGAGAUGGCUGUGUGAAGGGGGGAAAUGAU-------UG
........((((((((((((((((...(((((((....)))))))...).)))))((--(.......))).....))))))))))..............-------.. ( -32.50)
>DroSec_CAF1 22186 84 - 1
AAGCAA-AUCGCACGGCCCACUGC-----------AAAGCCAAUUUUGGCCAGUGGG--UGGAA-AAAUCGAGGUGGCUGUGUGAAGG--GGAAAUGAU-------UG
......-.(((((((((((((((.-----------...((((....)))))))))((--(....-..))).....))))))))))...--.........-------.. ( -28.20)
>DroSim_CAF1 25498 84 - 1
AAGCAA-AUCGCACGGCCCACUGC-----------AAAGCCAAUUUUGGCCAGUGGG--UGGAA-AAAUCGAGGUGGCUGUGUGAAGG--GGAAAUGAU-------UG
......-.(((((((((((((((.-----------...((((....)))))))))((--(....-..))).....))))))))))...--.........-------.. ( -28.20)
>DroEre_CAF1 20141 96 - 1
AAGCAA-AUCGCACGCCCCACUGCA---GGCGGCUAAAGCCAAUUUCAGUCAGUGGGUGUGGAA-AAAUCGAGGUGGUUGGUUGG-------AUAUGAUUGCAGAUUG
......-.((.((((((((((((.(---(..(((....)))..)).))))..).))))))))).-.((((...(..((((.....-------...))))..).)))). ( -27.10)
>consensus
AAGCAA_AUCGCACGGCCCACUGC___________AAAGCCAAUUUUAGCCAGUGGG__UGGAA_AAAUCGAGGUGGCUGUGUGAAGG__GGAAAUGAU_______UG
........(((((((((((((((...............(((......))))))))......((.....)).....))))))))))....................... (-16.99 = -17.86 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:05 2006