Locus 3334

Sequence ID 3L_DroMel_CAF1
Location 9,781,502 – 9,781,609
Length 107
Max. P 0.735982
window5179

overview

Window 9

Location 9,781,502 – 9,781,609
Length 107
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 88.59
Mean single sequence MFE -36.44
Consensus MFE -27.74
Energy contribution -28.34
Covariance contribution 0.60
Combinations/Pair 1.14
Mean z-score -1.77
Structure conservation index 0.76
SVM decision value 0.44
SVM RNA-class probability 0.735982
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9781502 107 + 23771897
AAAAUGGGAGAUAGCGGCGCGGCUAAGAGCAUUUAUGAAAGCCCGGCUGGCCGGCGAUACAGGCCAAAGCAAACAGGGAC-UCCAAAUGACGCUUAUA---CUCCCAUGGA--------
...(((((((.((((......)))).((((..((((...(((((.(((((((.........))))..))).....))).)-)....)))).))))...---)))))))...-------- ( -34.60)
>DroSec_CAF1 76185 110 + 1
UAAGUGGGAGAUAGCGGCCCGGCCAAGAGCAUUUAUGAAAGCCCGGCUGGCCGGCGAUACAGGCCAAAGCAAACAGGGAC-UUCAAAUGACGCUCAUACUACUCCCAUGGA--------
...(((((((.(((.(((...)))..((((.((..((((..(((.(((((((.........))))..))).....)))..-))))...)).))))...))))))))))...-------- ( -40.80)
>DroSim_CAF1 78318 110 + 1
AAAGUGGGAGAUAGCGGCCCGGCUAAGAGCAUUUAUGAAAGCCCGGCUGGCCGGCGAUACAGGCCAAAGCAAACAGGGAC-UUCAAAUGACGCUCAUACUACUCCCAUGGA--------
...(((((((.((((......)))).((((.((..((((..(((.(((((((.........))))..))).....)))..-))))...)).))))......)))))))...-------- ( -40.30)
>DroEre_CAF1 78182 115 + 1
CAAAUGGCAGAUAGCGGCCCGGCUAAGAGCAUUUAUGAAAGCCCGCCUGGCCGGCGAUACAGGCUAAAGCAAACAGGGAC-UCCAAAUGACGCUCAUA---CACCCAUGGAGCCGAUGC
.....(((........)))(((((..((((..((((...((((((((.....))).......((....)).....))).)-)....)))).))))...---..((...))))))).... ( -29.60)
>DroYak_CAF1 87909 115 + 1
CAAAUGGGAGAUAGCGGCCCGGCUAAGAGCAUUUAUGAAAGCCCGCCUGGCCGGCGAUACAGAGCAAAGCAAACAGGGACGUCCAAAUGACGCUCAUA---CUCCCAUGGACAGGACU-
...(((((((...((((((.(((...(.((..........))).))).)))).((........))...)).....(((.((((.....)))))))...---)))))))..........- ( -36.90)
>consensus
AAAAUGGGAGAUAGCGGCCCGGCUAAGAGCAUUUAUGAAAGCCCGGCUGGCCGGCGAUACAGGCCAAAGCAAACAGGGAC_UCCAAAUGACGCUCAUA___CUCCCAUGGA________
...(((((((.((((......)))).((((.((...((...(((.(((((((.........))))..))).....)))...)).....)).))))......)))))))........... (-27.74 = -28.34 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:02 2006