Locus 4554

Sequence ID X_DroMel_CAF1
Location 11,976,487 – 11,976,596
Length 109
Max. P 0.898665
window7486

overview

Window 6

Location 11,976,487 – 11,976,596
Length 109
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.01
Mean single sequence MFE -25.60
Consensus MFE -18.58
Energy contribution -19.58
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.73
SVM decision value 1.00
SVM RNA-class probability 0.898665
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11976487 109 - 22224390
UAAAAGAAAAAGAGAGACGAUUUUCAUGGCCUGCAAGCAAGUCGGAAGUAUCGAAAAUUUUCCGGACGGAUAUUGCAGAUUGGGUGUUCGAGUGGAAAUAAGUAA-----------AAAA
.................((((((((.((((.((....)).)))))))).)))).....((((((..((((((((........))))))))..)))))).......-----------.... ( -22.40)
>DroSec_CAF1 16321 113 - 1
UAAAAGAAA----GAGAACAUUUUCAUGGCCUGCAAGCAGGUCGGAAGCUUCGAAA-CUUUCCGAACGGAUAUUGCAGAUUGGGUGUUCGAGUGGAAAUAAGCAAAAAAC--GAAAAAAA
.........----.......(((((.(((((((....)))))))...((((.....-.((((((..((((((((........))))))))..)))))).)))).......--)))))... ( -27.80)
>DroSim_CAF1 16437 115 - 1
UAAAAGAAA----GAGAACAUUUUCAUGGCCUGCAGGCAGGUCGGAAGCUUCGAAA-CUUUCCGAACGGAUAUUGCAGAUUGGGUGUUCGAGUGGAAAUAGGCAAAAAAAAAAAAAAAAA
.........----.........(((.(((((((....))))))))))((((.....-.((((((..((((((((........))))))))..)))))).))))................. ( -25.90)
>DroEre_CAF1 15209 100 - 1
UAAAAGAAA----A-GCACAU----AUGGCCUGCCAGCAGGUAGAAAGCUUCCAAA-UUUUCCGAACGGAUAUUGCCGGUUGGGUGUUCGAGUGGAAACAAGCGAAAACA----------
........(----(-((....----...(((((....))))).....)))).....-....((((.(((......))).))))((.((((..((....))..)))).)).---------- ( -28.00)
>DroYak_CAF1 15881 106 - 1
UAAAAGAAA----AUGCACAUUUUCAUGGCCUGCAAGCAGG----AAGCGUAGAAA-UUUUCCGGACGGAUAUUGCAGAUUGGGUGUUCGAGUGGAAAUAAGCAAAAACU-----UUCCA
..((((...----.(((....(((((((.((((....))))----...))).))))-.((((((..((((((((........))))))))..))))))...)))....))-----))... ( -23.90)
>consensus
UAAAAGAAA____GAGAACAUUUUCAUGGCCUGCAAGCAGGUCGGAAGCUUCGAAA_UUUUCCGAACGGAUAUUGCAGAUUGGGUGUUCGAGUGGAAAUAAGCAAAAAAA______AAAA
..........................(((((((....)))))))..............((((((..((((((((........))))))))..))))))...................... (-18.58 = -19.58 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:58 2006