Locus 2222

Sequence ID 3L_DroMel_CAF1
Location 6,149,115 – 6,149,222
Length 107
Max. P 0.602455
window3444

overview

Window 4

Location 6,149,115 – 6,149,222
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.81
Mean single sequence MFE -26.83
Consensus MFE -17.95
Energy contribution -17.98
Covariance contribution 0.03
Combinations/Pair 1.23
Mean z-score -1.45
Structure conservation index 0.67
SVM decision value 0.14
SVM RNA-class probability 0.602455
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6149115 107 + 23771897
AAAAAAGACGAGGUUUUCUGCAUCUGCACCAAGAAACACGGUAAACGAGUGCAGUGCACCAAAUGCCGUCGGUGGCAACACGAAAUGUGCAUGACUAUUUCAGAAAA
......((((..((((..((((.(((((((................).))))))))))..))))..)))).(((....)))((((((........))))))...... ( -28.59)
>DroSec_CAF1 507 107 + 1
AAAAAAGACGAGGUUUUUUGCAUCUGCACCAAGAAACACGGCAAACGAGUGCAGUGCACCAAAUGCCAUCGGUGGCAACAUGAAAUGUGCAUGACUAUUUCAGAUAC
........((((((.(((((((.(((((((................).))))))))))..))).))).)))(((....)))((((((........))))))...... ( -24.99)
>DroSim_CAF1 553 107 + 1
AAAAAAGACGAGGUUUUUUGCAUCUGCACCAAGAAACACGGCAAACGAGUGCAGUGCACCAAAUGCCAUCGAUGGCAACACGAAAUGUGCAUGACUAUUUCAGAUAC
.........(((((....((((.(((((((................).))))))))))....(((((((((.((....)))))..)).))))....)))))...... ( -23.69)
>DroEre_CAF1 564 107 + 1
AAACAACAAGAGGUUUUCUGCAUCUGCACCAAGAAACUUGGUAAACGGGUGCAGUGCACCAAAUGCCGUCGGUGGCAGCACGAAACAUGUAUGACUAUUUCAGAUAC
.........(((((..((((((((((.((((((...))))))...))))))))((((......(((((....)))))))))...........))..)))))...... ( -29.80)
>DroWil_CAF1 504 107 + 1
CGAGAAGCAGAUACAUUAUGCAUCUGCACUAGAAAACGAGAGAAAAAAGUUCAGUGCAGUAAUUGUCGUCUGUGGCAGCAUGCCAAAUGUAUGAAUAUUGCCAAUAA
......(((((((((........(((((((.(((..(....).......))))))))))....))).))))))((((((((((.....)))))....)))))..... ( -27.10)
>DroYak_CAF1 553 107 + 1
AAAAAACAGGAGGUUUUCUGCAUCUGCACCAAGAAACAUGAUAAACGCGUGCAGUGCAUCAAAUGCCGUCGAUGGCAGCACGAAUCGUGUAUGGGCAUUUCGGAUAC
................((((.(..(((.(((....(((((((.....(((((.(.....)...(((((....)))))))))).))))))).))))))..)))))... ( -26.80)
>consensus
AAAAAAGACGAGGUUUUCUGCAUCUGCACCAAGAAACACGGUAAACGAGUGCAGUGCACCAAAUGCCGUCGGUGGCAACACGAAAUGUGCAUGACUAUUUCAGAUAC
.........(((((..((((((.((((((...................)))))))))).....(((((....)))))...............))..)))))...... (-17.95 = -17.98 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:13 2006