Locus 5327

Sequence ID	X_DroMel_CAF1
Location	13,914,523 – 13,914,664
Length	141
Max. P	0.992027

overview

Window 2

Location	13,914,523 – 13,914,625
Length	102
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	88.58
Mean single sequence MFE	-40.70
Consensus MFE	-33.06
Energy contribution	-33.48
Covariance contribution	0.42
Combinations/Pair	1.12
Mean z-score	-2.25
Structure conservation index	0.81
SVM decision value	0.41
SVM RNA-class probability	0.725545
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13914523 102 + 22224390
-------------UUUCGUUUUC-----AGGGUUCCCUGCGUGCCGCUGUGCUGCAGCUUUGGCUUAGUAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCC
-------------....(((((.-----.((((....(((((.....(((((((((((..((((........))))...)))))))))))......))))).......))))..))))). ( -39.60)
>DroSec_CAF1 14768 102 + 1
-------------UUUCGUUUUC-----AGGGUUCCCUGCGUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCC
-------------....(((((.-----.((((....(((((.....(((((((((((..((((........))))...)))))))))))......))))).......))))..))))). ( -39.60)
>DroSim_CAF1 36770 102 + 1
-------------UUUCGUUUUC-----AGGGUUCCCUGCGUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCC
-------------....(((((.-----.((((....(((((.....(((((((((((..((((........))))...)))))))))))......))))).......))))..))))). ( -39.60)
>DroEre_CAF1 10625 102 + 1
-------------UUUCGUUUUC-----AGGGUUCCCUGCGUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCC
-------------....(((((.-----.((((....(((((.....(((((((((((..((((........))))...)))))))))))......))))).......))))..))))). ( -39.60)
>DroWil_CAF1 46393 119 + 1
UUUCUGAUUCGGUUUUUGUUUUCUUGGCAGAGCU-GCUGCGUGCGGUUCUGUGGCAGUCUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCAGCAGCAGCA
..............((((((.....))))))(((-((((((..(((...((((..(((.((((((..((((((.....))))))))).))))))...))))...)))..).)))))))). ( -47.80)
>DroYak_CAF1 25357 102 + 1
-------------UUUCGUUUUC-----AGGGUUCCCUGCGUGCCGCAGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCC
-------------....(((((.-----.((((....(((((......((((((((((..((((........))))...)))))))))).......))))).......))))..))))). ( -38.02)
>consensus
_____________UUUCGUUUUC_____AGGGUUCCCUGCGUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCC
.............................((((....(((((.....(((((((((((..((((........))))...)))))))))))......))))).......))))........ (-33.06 = -33.48 +   0.42)

alignment

secondary structure

dotplot

Window 3

Location	13,914,545 – 13,914,664
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.62
Mean single sequence MFE	-39.18
Consensus MFE	-36.50
Energy contribution	-37.30
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.93
SVM decision value	2.30
SVM RNA-class probability	0.992027
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13914545 119 + 22224390
GUGCCGCUGUGCUGCAGCUUUGGCUUAGUAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCCGCACCACCCACCAAAGGCACCCAGCCACC-ACAUCAUGCC
((((.(((((((((((((..((((........))))...))))))))))...(((...((((....))))..))).))).))))...........(((.....)))...-.......... ( -41.10)
>DroSec_CAF1 14790 119 + 1
GUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCCGCACCACCCACUA-AGGCACCCAGCCACCCCCAUCAUGCC
((((.(((((((((((((..((((........))))...))))))))))...(((...((((....))))..))).))).)))).........-.(((.....))).............. ( -41.10)
>DroSim_CAF1 36792 119 + 1
GUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCCGCACCACCCACUA-AGGCACCCAGCCACCCCCAUCAUGCC
((((.(((((((((((((..((((........))))...))))))))))...(((...((((....))))..))).))).)))).........-.(((.....))).............. ( -41.10)
>DroEre_CAF1 10647 116 + 1
GUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCCGCACCACCCACCA--GCCACCCAGCCACC--CACCAUGCC
((((.(((((((((((((..((((........))))...))))))))))...(((...((((....))))..))).))).)))).........--..............--......... ( -36.60)
>DroYak_CAF1 25379 116 + 1
GUGCCGCAGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCCGCACCACCCACCA--CCCACUAAGCCACC--CAUUAUGCC
((((.((.((((((((((..((((........))))...))))))))))...(((...((((....))))..)))..)).)))).........--..............--......... ( -36.00)
>consensus
GUGCCGCUGUGCUGCAGCUUUGGCUUAGCAGCGUCACGUGCUGCAGCGCAAACUUAACGCAUUUCCGUGCCCAAGGAGCCGCACCACCCACCA_AGGCACCCAGCCACC__CAUCAUGCC
((((.(((((((((((((..((((........))))...))))))))))...(((...((((....))))..))).))).))))...........(((.....))).............. (-36.50 = -37.30 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:59 2006