Locus 3982

Sequence ID X_DroMel_CAF1
Location 10,543,502 – 10,543,616
Length 114
Max. P 0.781791
window6549

overview

Window 9

Location 10,543,502 – 10,543,616
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 77.44
Mean single sequence MFE -33.86
Consensus MFE -19.12
Energy contribution -18.88
Covariance contribution -0.24
Combinations/Pair 1.14
Mean z-score -1.90
Structure conservation index 0.56
SVM decision value 0.56
SVM RNA-class probability 0.781791
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10543502 114 + 22224390
UGGAGUGGUUUGGGAUCCCAAAAAGGGAUAUGUG------UGCUCUGCAGCUUAAAGCGAUUUAAGAGGCCACUUUUUGGGGCAGGCAACCGAAGGUUACACACGUCAUUCAAUCGGUAG
..(((((((((((.(((((.....))))).(((.------((((((((..((((((....))))))..))........)))))).))).)))))(......)...))))))......... ( -32.80)
>DroSec_CAF1 69909 106 + 1
UGGAGUGGU-UGGGAUCCCAAAAAGGGAUAUAUG------UGCUCUGCAGCUUUAAGUGAUUUAAGAGGCAACUCUUUGGGGCAGGCAAACCAAGGUUAUACAC-------AAUCGGUAG
...(.((((-(((((((((.....))))).....------(((.((((.((.....)).....(((((....)))))....)))))))..))..(......).)-------))))).).. ( -28.90)
>DroSim_CAF1 73892 106 + 1
UGGAGUGGU-UGGGAUCCCAAAAAGGGAUAUAUG------UGCUCUGCAGCUUAAAGCGAUUUAAGAGGCAACUCUUUGGGGCAGGCAAACCAAGGUUAUACAC-------AAUCGGUAG
...(.((((-(((((((((.....))))).....------(((.((((.((.....)).....(((((....)))))....)))))))..))..(......).)-------))))).).. ( -31.20)
>DroEre_CAF1 70868 102 + 1
UGG-GUGGU-UGAGAUUCCAAAAAGGGAUAUACGAGCAUGUGCUCUGCGGCUUAAAGUGGUUUAAGAGGCAACUUUUUGGGGCAA----------------CACGCGACUCAAACGCAGG
...-(((.(-((((..(((((((((........((((....))))(((..((((((....))))))..))).)))))))))((..----------------...))..))))).)))... ( -32.70)
>DroYak_CAF1 73144 114 + 1
UGGGGCGGU-UGUGAUCCCAAAAAGGGAUAUGUGAA----UGCU-UAAAGCUUAAAGCGAUUCAAGAGGCCACUUUUUGGGGCAAGCAACCCAAGGUUGCACACGUGAUUCAAUCGCUAG
...((((((-((((.((((((((((((.....((((----((((-(........)))).))))).....)).)))))))))))).((((((...))))))..........)))))))).. ( -43.70)
>consensus
UGGAGUGGU_UGGGAUCCCAAAAAGGGAUAUAUG______UGCUCUGCAGCUUAAAGCGAUUUAAGAGGCAACUUUUUGGGGCAGGCAAACCAAGGUUACACACG__A_UCAAUCGGUAG
....(((.......(((((.....)))))...........((((((...((.....)).....(((((....))))).)))))).................)))................ (-19.12 = -18.88 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:31 2006