Locus 2632

Sequence ID	3L_DroMel_CAF1
Location	7,238,491 – 7,238,630
Length	139
Max. P	0.942837

overview

Window 1

Location	7,238,491 – 7,238,606
Length	115
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	93.91
Mean single sequence MFE	-45.40
Consensus MFE	-39.95
Energy contribution	-39.45
Covariance contribution	-0.50
Combinations/Pair	1.13
Mean z-score	-1.54
Structure conservation index	0.88
SVM decision value	0.21
SVM RNA-class probability	0.634954
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7238491 115 + 23771897
ACUGUAUUGGGGGCUUACUACAUUAGGCUCCACUGGCUGACAGGCACCGCUGUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUGGGGGUCA
.........((((((((......)))))))).(((((..((((......))))..)))))((.(((((((....)))))((((((((...(....)...)))))))))).))... ( -46.00)
>DroSec_CAF1 19929 115 + 1
ACUGCAUUGGGGGCUUACUGCAUUAGGCUCCACUGGCUGACAGGCAACGCUUUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUAGGGGUCA
...(((((.((((((((......)))))))).(((((..(.((((...)))))..))))).....(((((....))))))))))...(((((.(((((....))..))).))))) ( -42.40)
>DroSim_CAF1 19981 115 + 1
AGUGCAUUGGGGGCUUAUUACAUUAGGCUCCACUGGAUGACAGGCAACGCUUUUGGCCAGCUGCCGCACGUGAUUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUAGGGGUCA
.((.((...((((((((......))))))))..)).))(((.(....)(((.(..((((((.((.(((((....)))))...))........))))))..)))).......))). ( -41.80)
>DroEre_CAF1 20549 115 + 1
GGUGCAUUGGGGGCUUACUACAUUAGGCCCCACUGGCUGACAGGCACCGCUUUUGGCCAGCUGCCGCACGUGACUGCGCAAUGCUUUUGACUGUUGGCUGGAGCAUUGGGGGUCA
.((((....((((((((......)))))))).(((((..(.((((...)))))..))))).....)))).(((((.(.(((((((((...(....)...)))))))))).))))) ( -51.40)
>consensus
ACUGCAUUGGGGGCUUACUACAUUAGGCUCCACUGGCUGACAGGCAACGCUUUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUAGGGGUCA
...((((((((((((((......)))))))).((((((((.((((...))))))))))))....((((......))))))))))...(((((.((.((....))...)).))))) (-39.95 = -39.45 +  -0.50)

alignment

secondary structure

dotplot

Window 2

Location	7,238,526 – 7,238,630
Length	104
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	95.33
Mean single sequence MFE	-43.84
Consensus MFE	-37.08
Energy contribution	-38.76
Covariance contribution	1.68
Combinations/Pair	1.05
Mean z-score	-1.82
Structure conservation index	0.85
SVM decision value	1.33
SVM RNA-class probability	0.942837
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7238526 104 + 23771897
GCUGACAGGCACCGCUGUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUGGGGGUCAUGUUGGCUGGCG-GCAGAAGUUGGG
((..((((......))))..))..((((((((((((((((.(.(((((((((...(....)...)))))))))).))))))))..)).))))-)).......... ( -45.20)
>DroSec_CAF1 19964 105 + 1
GCUGACAGGCAACGCUUUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUAGGGGUCAUGUUGGCUGGCGGGCAGAAGUUGGG
(((....)))...(((((((.((.(((((((.((((((((.(..((((((((...(....)...)))))))).).)))))))))))).))))).))))))).... ( -43.50)
>DroSim_CAF1 20016 105 + 1
GAUGACAGGCAACGCUUUUGGCCAGCUGCCGCACGUGAUUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUAGGGGUCAUGUUGGCUGGCGGGCAGAAGUUGGG
.......(....)(((((((.((.(((((((.((((((((.(..((((((((...(....)...)))))))).).)))))))))))).))))).))))))).... ( -39.90)
>DroEre_CAF1 20584 105 + 1
GCUGACAGGCACCGCUUUUGGCCAGCUGCCGCACGUGACUGCGCAAUGCUUUUGACUGUUGGCUGGAGCAUUGGGGGUCAUGUUGGCUGGGGGGCAGAUGUUGGG
.(..(((.((.((.((...(((((((....))((((((((.(.(((((((((...(....)...)))))))))).))))))))))))))).))))...)))..). ( -45.00)
>DroYak_CAF1 21737 104 + 1
GCUGACAGGCACCGCUUUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGUUGGCUGGAGCAUUGGGGGUCAUGUUGGCUGG-GGGCAGAAGUUGGG
(((....))).(((((((((.((....((((.((((((((.(.(((((((((...(....)...)))))))))).))))))))))))...-)).)))))).))). ( -45.60)
>consensus
GCUGACAGGCACCGCUUUUGGCCAGCUGCCGCACGUGACUGUGCAAUGCUUUUGACUGCUGGCUGGAGCAUUGGGGGUCAUGUUGGCUGGCGGGCAGAAGUUGGG
(((....))).(((((((((.((.(((((((.((((((((.(.(((((((((...(....)...)))))))))).)))))))))))).))))).)))))).))). (-37.08 = -38.76 +   1.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:07 2006