Locus 7979

Sequence ID X_DroMel_CAF1
Location 19,874,307 – 19,874,423
Length 116
Max. P 0.598971
window13090

overview

Window 0

Location 19,874,307 – 19,874,423
Length 116
Sequences 4
Columns 119
Reading direction forward
Mean pairwise identity 80.93
Mean single sequence MFE -23.69
Consensus MFE -16.13
Energy contribution -16.82
Covariance contribution 0.69
Combinations/Pair 1.10
Mean z-score -1.64
Structure conservation index 0.68
SVM decision value 0.13
SVM RNA-class probability 0.598971
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19874307 116 + 22224390
ACGGGCUAAGUCCAACAUUAUCUUACAUUAUAUACCCUUUCCUU--AUACCCUCUUCAUCCAUGGAAUGGCAGGUAAA-AAGCCGAAGCAAAUAAAUAAAUGCUGUACCUGUCGUGGGA
..((((...)))).....................(((..(((..--.................)))((((((((((..-.(((..................))).))))))))))))). ( -24.98)
>DroSec_CAF1 28448 103 + 1
ACAGGCUAAGUCCCACAUUAUCUUACAUA--------------U--AUACCCUCUUCAUCCAGGGAAUGGCAGGUAAAAAAGCCGAAGCAAAUAAAUAAAUGCUGUACCUGUCGUGGGA
..........((((((.............--------------.--...((((........))))...((((((((....(((..................))).)))))))))))))) ( -28.57)
>DroSim_CAF1 19907 103 + 1
ACAGGCUAAGUCGCACAUUAUCUUACAUA--------------C--AUACCCUCUUCAUCCAGGGAAUGGCAGGUAAAAAAGCCGAAGCAAAUAAAUAAAUGCUGUACCUGUCGUGGGA
....((......))......((((((...--------------.--...((((........))))...((((((((....(((..................))).)))))))))))))) ( -24.67)
>DroYak_CAF1 3148 101 + 1
AAAGACUAACCCCA-CAGUAACUUGCAUA--------------CAAACACCCUCUUCAUUCAAAGAAUGGCAGGU-AGAAA-CUGAAG-AUAUAAAUAAAUGCUGUACCUGUCGUGGCA
...........(((-(.............--------------.........((((......))))..(((((((-(.(..-......-..............).)))))))))))).. ( -16.55)
>consensus
ACAGGCUAAGUCCAACAUUAUCUUACAUA______________C__AUACCCUCUUCAUCCAGGGAAUGGCAGGUAAAAAAGCCGAAGCAAAUAAAUAAAUGCUGUACCUGUCGUGGGA
.................................................(((((((......))))((((((((((....(((..................))).))))))))))))). (-16.13 = -16.82 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:15 2006