Locus 1340

Sequence ID X_DroMel_CAF1
Location 4,019,054 – 4,019,152
Length 98
Max. P 0.689534
window2138

overview

Window 8

Location 4,019,054 – 4,019,152
Length 98
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 80.37
Mean single sequence MFE -18.11
Consensus MFE -12.02
Energy contribution -12.77
Covariance contribution 0.75
Combinations/Pair 1.10
Mean z-score -1.57
Structure conservation index 0.66
SVM decision value 0.33
SVM RNA-class probability 0.689534
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4019054 98 - 22224390
AAGAAAGAAAAAAAACCGGGAAUGGAGCGAGAACUG-GCGAAUGAGAUAUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUGCGUAGACGCUAGC
...............(((....)))((((....(((-.((...((((((((((((..................)))))))))))).))))).))))... ( -17.97)
>DroSec_CAF1 33173 96 - 1
A--AAGGAGGAAAAAACGGGAAAGGAGCGAGAACUG-GCGAAUGAGAUAUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUGCGUAGACGCUGGC
.--.......................((.((.....-(((...((((((((((((..................)))))))))))).))).....)).)) ( -17.57)
>DroSim_CAF1 32099 96 - 1
A--AAGGAGGAAAAAACGGGAAAGGAGCGAGAACUG-GCGAAUGAGAUAUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUGCGUAGACGCUGGC
.--.......................((.((.....-(((...((((((((((((..................)))))))))))).))).....)).)) ( -17.57)
>DroEre_CAF1 31834 85 - 1
-------------AACCGAAGAGGGAGCGAGAACUG-GCGAAUGAGAUAUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUGCGUAGACGCUGAC
-------------..((.....)).((((....(((-.((...((((((((((((..................)))))))))))).))))).))))... ( -18.07)
>DroWil_CAF1 41516 94 - 1
---UGGGGGGAGAUAAAAGCAAAGCGGAGACAACAGAGUAAAAGAUAUUUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUCCCUACACU--GUC
---..((((((((((...(((..(((....)......(((((((...)))))))................)).)))...)))))))))).....--... ( -21.00)
>DroYak_CAF1 31539 85 - 1
-------------AACUUGGAAGGGAGCGAGAACUG-GCGAAUGAGAUAUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUGCGUAGACGCUGAC
-------------.........(..((((....(((-.((...((((((((((((..................)))))))))))).))))).))))..) ( -16.47)
>consensus
___AAGGAGGAAAAAACGGGAAAGGAGCGAGAACUG_GCGAAUGAGAUAUUUGCAAUAAAAGUAUAAACAGCAUGCAAAUAUUUUGCGUAGACGCUGGC
.........................((((....(((.((((....((((((((((..................)))))))))))))).))).))))... (-12.02 = -12.77 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:56 2006