Locus 5306

Sequence ID 3R_DroMel_CAF1
Location 13,857,439 – 13,857,559
Length 120
Max. P 0.618488
window8658

overview

Window 8

Location 13,857,439 – 13,857,559
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.36
Mean single sequence MFE -23.06
Consensus MFE -18.84
Energy contribution -19.00
Covariance contribution 0.16
Combinations/Pair 1.09
Mean z-score -1.40
Structure conservation index 0.82
SVM decision value 0.17
SVM RNA-class probability 0.618488
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13857439 120 + 27905053
CAAUAGCUACCAUUUGUUAUUAUUAUUUGUGAGUGAUUCCUCUCAUUGAAGCAUCUUCUUGUUUAUAAUCUAAAGAAGAAUAAAUAGGUUUAUUGUUUUUUGUGAUAAUUGGUUUAACAG
........((((.(((((((........(((((.(....).))))).((((((....(((((((((..(((.....)))))))))))).....))))))..))))))).))))....... ( -22.30)
>DroSec_CAF1 128482 117 + 1
CAAUUGCUACCAUUUGUUAU---UAUUUGUGAGUGAUUCCUCUCAUUGAAGCAUCUUCUUGUUUAUAAUCUAAAGAAUAAUAAGCAGGUUUAUUGUUUUUUGUGAUAAUUAGUUUAACAG
..............(((((.---.....(((((.(....).)))))..(((((......)))))...(((((((((((((((((....)))))))))))))).)))........))))). ( -19.70)
>DroSim_CAF1 134534 117 + 1
CAAUAGCAACCAUUUGUUAU---UAUUUGUGAGUGAUUCCUCUCAUUGAAGCAUCUUCUUGUUUAUAAUCUAAAGAAGAAUAAACAGGUUUAUUGUUUUUUGUGAUAAUUGGUUUAACAG
.......(((((.(((((((---.....(((((.(....).))))).((((((....(((((((((..(((.....)))))))))))).....))))))..))))))).)))))...... ( -25.20)
>DroEre_CAF1 128944 116 + 1
CAAUAGCUACCAUUUGUUAU---UAUUUGUGAGUGAUGCCUCUCAUAGAAGCAUCUUCUUGUUUAUAAUCUAAGAAAGAAUAAACAGGUUUAUUGUUUU-UCUGAUAAUUGGAUUAACAG
.((((((........)))))---)...((((((.(((((.((.....)).)))))..))).....((((((((...((((.((((((.....)))))))-))).....))))))))))). ( -25.30)
>DroYak_CAF1 139664 115 + 1
CAAUAGCUCACAUUUGUUAA---UAUUUGUGAGUGAUCCCUCUCAUUGAAGCAUCUUCUUGUUUAUAAUCUAA-AAAGAAUAAACAGGUUUAUUGUUUU-UCCGAUAAUCGUAUUAACAG
..............((((((---(((..(((((.(....).))))).((((((....(((((((((..(((..-..)))))))))))).....))))))-..........))))))))). ( -22.80)
>consensus
CAAUAGCUACCAUUUGUUAU___UAUUUGUGAGUGAUUCCUCUCAUUGAAGCAUCUUCUUGUUUAUAAUCUAAAGAAGAAUAAACAGGUUUAUUGUUUUUUGUGAUAAUUGGUUUAACAG
.........(((.((((((.........(((((.(....).))))).((((((....(((((((((..(((.....)))))))))))).....))))))...)))))).)))........ (-18.84 = -19.00 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:38 2006