Locus 6165

Sequence ID	X_DroMel_CAF1
Location	15,731,718 – 15,731,836
Length	118
Max. P	0.803879

overview

Window 1

Location	15,731,718 – 15,731,836
Length	118
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	88.09
Mean single sequence MFE	-29.83
Consensus MFE	-20.81
Energy contribution	-22.50
Covariance contribution	1.69
Combinations/Pair	1.09
Mean z-score	-2.19
Structure conservation index	0.70
SVM decision value	0.58
SVM RNA-class probability	0.789042
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15731718 118 + 22224390
GAUCGAUAACGAUUUUUAAAAUGCAACCUCGUUCGCAGGCAGAAUAAAGCUCAUGAUAUAAUCAUGUGAUUUAUACUGGUUGUACAAGGUUAAGAGAAGGGACUUUUUCCGAUUUUCC
(((((....)))))..........(((((.((..((((.(((.(((((.(.((((((...)))))).).))))).))).)))))).)))))..(((((.(((.....)))..))))). ( -28.80)
>DroSec_CAF1 4516 117 + 1
GAUCGAUAACGAUUUUUGAAAUACAACCUUGUUCGCAGCCAGAAUAAAGCUCAUGAUAUAAUCUUGUGAUUUAUACUGGUUGUACAAGGUUAAGAGAAGUGACUUUCCCCGAUU-UCC
(((((....)))))...(((((.(((((((((..((((((((.(((((..(((..(.......)..)))))))).))))))))))))))))..((((......))))...))))-)). ( -31.10)
>DroSim_CAF1 4832 117 + 1
GAUCGAUAACGAUUUUUGAAAUACAACCUUGUUCGCAGCCAGAAUAAAGCUCAUGAUAUAAUCUUGUGAUUUAUACUGGUUGUACAAGGUUAGGAGAAGUGACUUUCCCCGAUU-UCC
(((((....)))))...(((((.(((((((((..((((((((.(((((..(((..(.......)..)))))))).)))))))))))))))).(((((......)))))..))))-)). ( -34.40)
>DroEre_CAF1 4546 116 + 1
UAUCGAUCACGAUUUUUGCAAUACAACCUUGUUAGCAUCCAGC-UUAAGCUCACGCUAUAUUCCUGUAAUUUAUACUGGUUGGUCAAGGUUAAAAGCAGGGACUUUCCCUGAUU-UCC
.((((....))))...........(((((((.((((....(((-....)))...))))....((.(((.....))).)).....))))))).....(((((.....)))))...-... ( -25.00)
>consensus
GAUCGAUAACGAUUUUUGAAAUACAACCUUGUUCGCAGCCAGAAUAAAGCUCAUGAUAUAAUCUUGUGAUUUAUACUGGUUGUACAAGGUUAAGAGAAGGGACUUUCCCCGAUU_UCC
(((((...................((((((((..((((((((.(((((...((.((.....)).))...))))).)))))))))))))))).((((......))))...))))).... (-20.81 = -22.50 +   1.69)

alignment

secondary structure

dotplot

Window 2

Location	15,731,718 – 15,731,836
Length	118
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	88.09
Mean single sequence MFE	-28.42
Consensus MFE	-20.38
Energy contribution	-21.00
Covariance contribution	0.62
Combinations/Pair	1.17
Mean z-score	-2.11
Structure conservation index	0.72
SVM decision value	0.63
SVM RNA-class probability	0.803879
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15731718 118 - 22224390
GGAAAAUCGGAAAAAGUCCCUUCUCUUAACCUUGUACAACCAGUAUAAAUCACAUGAUUAUAUCAUGAGCUUUAUUCUGCCUGCGAACGAGGUUGCAUUUUAAAAAUCGUUAUCGAUC
........(((.....))).......(((((((((.((..(((.(((((.(.((((((...)))))).).))))).)))..))...)))))))))..........((((....)))). ( -23.20)
>DroSec_CAF1 4516 117 - 1
GGA-AAUCGGGGAAAGUCACUUCUCUUAACCUUGUACAACCAGUAUAAAUCACAAGAUUAUAUCAUGAGCUUUAUUCUGGCUGCGAACAAGGUUGUAUUUCAAAAAUCGUUAUCGAUC
.((-(((.((((((......))))))(((((((((.((.((((.(((((.(.((.(((...))).)).).))))).)))).))...))))))))).)))))....((((....)))). ( -27.90)
>DroSim_CAF1 4832 117 - 1
GGA-AAUCGGGGAAAGUCACUUCUCCUAACCUUGUACAACCAGUAUAAAUCACAAGAUUAUAUCAUGAGCUUUAUUCUGGCUGCGAACAAGGUUGUAUUUCAAAAAUCGUUAUCGAUC
.((-(((.((((((......))))))(((((((((.((.((((.(((((.(.((.(((...))).)).).))))).)))).))...))))))))).)))))....((((....)))). ( -30.60)
>DroEre_CAF1 4546 116 - 1
GGA-AAUCAGGGAAAGUCCCUGCUUUUAACCUUGACCAACCAGUAUAAAUUACAGGAAUAUAGCGUGAGCUUAA-GCUGGAUGCUAACAAGGUUGUAUUGCAAAAAUCGUGAUCGAUA
.((-((.(((((.....))))).))))(((((((.....((.(((.....))).))....((((((.(((....-)))..)))))).)))))))...........((((....)))). ( -32.00)
>consensus
GGA_AAUCGGGGAAAGUCACUUCUCUUAACCUUGUACAACCAGUAUAAAUCACAAGAUUAUAUCAUGAGCUUUAUUCUGGCUGCGAACAAGGUUGUAUUUCAAAAAUCGUUAUCGAUC
........((((((......))))))(((((((((.((.((((.(((((.(.((.((.....)).)).).))))).)))).))...)))))))))..........((((....)))). (-20.38 = -21.00 +   0.62)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:09 2006