Locus 4346

Sequence ID 3R_DroMel_CAF1
Location 11,464,441 – 11,464,533
Length 92
Max. P 0.584232
window7106

overview

Window 6

Location 11,464,441 – 11,464,533
Length 92
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 82.34
Mean single sequence MFE -27.12
Consensus MFE -14.20
Energy contribution -14.45
Covariance contribution 0.25
Combinations/Pair 1.18
Mean z-score -2.47
Structure conservation index 0.52
SVM decision value 0.10
SVM RNA-class probability 0.584232
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11464441 92 + 27905053
AAGGGA---------------AAAAUAUGAAAAAGCCAGCAGGCAGGGAGGAAAUGACGGG-------------GGAAACAGCGAAAGUGAACAGUUGCCAGGGUCUGGGCGGUGUAUCC
......---------------.............(((..(((((..((..(...((.....-------------(....).((....))...)).)..))...))))))))......... ( -18.80)
>DroSec_CAF1 198241 99 + 1
-AGGGG---------------AAAAUAUGAAAAAGCCAGCAGGAUGCGAGGAAAUGACGGG-----GGAGCUGGGGAAACAGCGAAAGUGAACAGUUGUCAGGGUCUGGGCGGUGUAUCC
-.....---------------....................(((((((..(....(((..(-----(.(((((.(....).((....))...))))).))...)))....)..))))))) ( -24.80)
>DroSim_CAF1 193389 99 + 1
-AGGGA---------------AAAAUAUGAAAAAGCCAGCAGGAUGCGAGGAAAUGACGGG-----GGAGCUGGGGAAACAGCGAAAGUGAACAGUUGCCAGGGUCUGGGCGGUGUAUCC
-.....---------------....................(((((((..(....(((..(-----(.(((((.(....).((....))...))))).))...)))....)..))))))) ( -27.20)
>DroYak_CAF1 190485 119 + 1
-ACGGGAAAUACAUAUAUGAAAAAAUAUGAAAAAGCCAGCAGGCCGGGAGGAAACGAGGGGGGGAGGGAGCUGGGGAAACAGCGAAAGUGAACAGUUGCCAGGGUCUGGGCGGUGUAUCC
-...(((.((((.(((((......))))).....(((..((((((....(....)..........((.(((((.(....).((....))...))))).))..))))))))).)))).))) ( -37.70)
>consensus
_AGGGA_______________AAAAUAUGAAAAAGCCAGCAGGAUGCGAGGAAAUGACGGG_____GGAGCUGGGGAAACAGCGAAAGUGAACAGUUGCCAGGGUCUGGGCGGUGUAUCC
..................................(((..((((((....((.(((...................(....).((....)).....))).))..)))))))))......... (-14.20 = -14.45 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:52 2006