Locus 6046

Sequence ID	3L_DroMel_CAF1
Location	16,116,670 – 16,116,786
Length	116
Max. P	0.841193

overview

Window 7

Location	16,116,670 – 16,116,786
Length	116
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	96.66
Mean single sequence MFE	-27.60
Consensus MFE	-26.97
Energy contribution	-26.97
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.98
SVM decision value	0.51
SVM RNA-class probability	0.764295
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16116670 116 + 23771897
GUUUGAUCACUCCCCAAUUUGAUCGUUAUUUUA---UUUUUGUUUUUAAUUGUGCCGCUCGUUUCAGCUUGUUGC-AAUUAUUUUUAUCGCAGGUGAAAUGAUUGAGCACGUCUGGGGAC
..........((((((...(((........)))---...............((((((.((((((((.(((((.(.-((......)).).))))))))))))).)).))))...)))))). ( -27.40)
>DroSec_CAF1 2452 119 + 1
GUUUGAUCACUCCCCAAUUUGAUCGUUAUUUUGUUGUUUUUUUUUUUAAUUGUGCCGCUCGUUUCAGCUUGUUGC-AAUUAUUUUUAUCGCAGGUGAAAUGAUUGAGCACGUCUGGGGAC
..........((((((.......((......))..................((((((.((((((((.(((((.(.-((......)).).))))))))))))).)).))))...)))))). ( -27.10)
>DroSim_CAF1 1807 120 + 1
GUUUGAUCACUCCCCAAUUUGAUCGUUAUUUUGUUGUUUUUUUUUUUAAUUGUGCCGCUCGUUUCAGCUUGUUGCUAAUUAUUUUUAUCGCAGGUGAAAUGAUUGAGCACGUCUGGGGAC
..........((((((.......((......))..................((((((.((((((((.(((((.(.(((......))).)))))))))))))).)).))))...)))))). ( -28.30)
>consensus
GUUUGAUCACUCCCCAAUUUGAUCGUUAUUUUGUUGUUUUUUUUUUUAAUUGUGCCGCUCGUUUCAGCUUGUUGC_AAUUAUUUUUAUCGCAGGUGAAAUGAUUGAGCACGUCUGGGGAC
..........((((((........((((..................)))).((((((.((((((((.(((((....((.....))....))))))))))))).)).))))...)))))). (-26.97 = -26.97 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	16,116,670 – 16,116,786
Length	116
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.66
Mean single sequence MFE	-23.18
Consensus MFE	-20.24
Energy contribution	-20.02
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-2.52
Structure conservation index	0.87
SVM decision value	0.75
SVM RNA-class probability	0.841193
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16116670 116 - 23771897
GUCCCCAGACGUGCUCAAUCAUUUCACCUGCGAUAAAAAUAAUU-GCAACAAGCUGAAACGAGCGGCACAAUUAAAAACAAAAA---UAAAAUAACGAUCAAAUUGGGGAGUGAUCAAAC
.(((((((..(((((...((.(((((.(((((((.......)))-))....)).))))).))..))))).(((.........))---)...............))))))).......... ( -23.60)
>DroSec_CAF1 2452 119 - 1
GUCCCCAGACGUGCUCAAUCAUUUCACCUGCGAUAAAAAUAAUU-GCAACAAGCUGAAACGAGCGGCACAAUUAAAAAAAAAAACAACAAAAUAACGAUCAAAUUGGGGAGUGAUCAAAC
.(((((((..(((((...((.(((((.(((((((.......)))-))....)).))))).))..)))))..................(........)......))))))).......... ( -24.50)
>DroSim_CAF1 1807 120 - 1
GUCCCCAGACGUGCUCAAUCAUUUCACCUGCGAUAAAAAUAAUUAGCAACAAGCUGAAACGAGCGGCACAAUUAAAAAAAAAAACAACAAAAUAACGAUCAAAUUGGGGAGUGAUCAAAC
.(((((((..(((((...((.(((((.((((..............))....)).))))).))..)))))..................(........)......))))))).......... ( -21.44)
>consensus
GUCCCCAGACGUGCUCAAUCAUUUCACCUGCGAUAAAAAUAAUU_GCAACAAGCUGAAACGAGCGGCACAAUUAAAAAAAAAAACAACAAAAUAACGAUCAAAUUGGGGAGUGAUCAAAC
.(((((((..(((((...((.(((((.((......................)).))))).))..)))))..................(........)......))))))).......... (-20.24 = -20.02 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:49 2006