Locus 3627

Sequence ID	X_DroMel_CAF1
Location	9,702,919 – 9,703,012
Length	93
Max. P	0.984915

overview

Window 7

Location	9,702,919 – 9,703,012
Length	93
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	89.85
Mean single sequence MFE	-39.76
Consensus MFE	-30.40
Energy contribution	-30.60
Covariance contribution	0.20
Combinations/Pair	1.08
Mean z-score	-2.89
Structure conservation index	0.76
SVM decision value	1.99
SVM RNA-class probability	0.984915
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9702919 93 + 22224390
CUGGCUAGCAGGUUAGCUCCUGGCUGGCAAGCCGGAUGUUAACGGCCAGCAGCUGCAGUUGCAGCAGGAAGUGGCCA--AAAAAUCAG--GGCGCAU
((((((.....((((((..((((((....))))))..))))))))))))..(((((....))))).....(((.((.--........)--).))).. ( -39.60)
>DroSec_CAF1 44387 93 + 1
CUGGCUACCAGGAUAGCUCCUGGCUGGCAAGCCGGAUGUUAACGGCCAGCAGCUGCAGUUGCAGCAGGAAGUGGCCA--AAAAAUCAG--GGCGCAU
...((((((((((....)))))).))))..(((.(((......(((((.(.(((((....)))))..)...))))).--....)))..--))).... ( -38.50)
>DroSim_CAF1 18817 93 + 1
CUGGCUACCAGGAUAGCUCCUGGCUGGCAAGCCGGAUGUUAACGGCCAGCAGCUGCAGUUGCAGCAGGAAGUGGCCA--AAAAAUCCG--GGCGCAU
...((((((((((....)))))).))))...((((((......(((((.(.(((((....)))))..)...))))).--....)))))--)...... ( -41.20)
>DroEre_CAF1 21781 91 + 1
CUGGCC---A-GUUAGCUGCUGGCUGGCAAGCCGGAUGUUAACGGCCAGCAGCUGCAGUUGCAGCAGGAAGUGGCCAGGAAAAAUCGGG-GGCACA-
((((((---.-((((((..((((((....))))))..))))))))))))..(((((....))))).....(((.((..((....))..)-).))).- ( -45.20)
>DroYak_CAF1 20762 92 + 1
CUGGCC---UGGGUUGCUCCUGGCUGGCAAGCCGGAUGUUGACGGCCAGCAGCUACAGUUGCAACAGGAAGUGGCCA--AAAAAUCGGGUGGCGCAU
...(((---(((((..((((((((((((.(((.....)))....)))))).((.......))..)))).))..))).--......)))))....... ( -34.31)
>consensus
CUGGCUA_CAGGAUAGCUCCUGGCUGGCAAGCCGGAUGUUAACGGCCAGCAGCUGCAGUUGCAGCAGGAAGUGGCCA__AAAAAUCAG__GGCGCAU
...(((.....(.((((..((((((....))))))..)))).)(((((.(.(((((....)))))..)...)))))..............))).... (-30.40 = -30.60 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	9,702,919 – 9,703,012
Length	93
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	89.85
Mean single sequence MFE	-35.22
Consensus MFE	-25.38
Energy contribution	-25.10
Covariance contribution	-0.28
Combinations/Pair	1.12
Mean z-score	-2.56
Structure conservation index	0.72
SVM decision value	0.91
SVM RNA-class probability	0.879523
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9702919 93 - 22224390
AUGCGCC--CUGAUUUUU--UGGCCACUUCCUGCUGCAACUGCAGCUGCUGGCCGUUAACAUCCGGCUUGCCAGCCAGGAGCUAACCUGCUAGCCAG
....(((--..(((((..--((((((......(((((....)))))...))))))..)).))).)))..((.(((.(((......)))))).))... ( -31.50)
>DroSec_CAF1 44387 93 - 1
AUGCGCC--CUGAUUUUU--UGGCCACUUCCUGCUGCAACUGCAGCUGCUGGCCGUUAACAUCCGGCUUGCCAGCCAGGAGCUAUCCUGGUAGCCAG
..(((((--..(((((..--((((((......(((((....)))))...))))))..)).))).)))......(((((((....))))))).))... ( -36.70)
>DroSim_CAF1 18817 93 - 1
AUGCGCC--CGGAUUUUU--UGGCCACUUCCUGCUGCAACUGCAGCUGCUGGCCGUUAACAUCCGGCUUGCCAGCCAGGAGCUAUCCUGGUAGCCAG
..(((((--(((((((..--((((((......(((((....)))))...))))))..)).))))))...))..(((((((....))))))).))... ( -41.00)
>DroEre_CAF1 21781 91 - 1
-UGUGCC-CCCGAUUUUUCCUGGCCACUUCCUGCUGCAACUGCAGCUGCUGGCCGUUAACAUCCGGCUUGCCAGCCAGCAGCUAAC-U---GGCCAG
-......-...........(((((((.........((....))((((((((((.(....)....((....)).))))))))))...-)---)))))) ( -34.70)
>DroYak_CAF1 20762 92 - 1
AUGCGCCACCCGAUUUUU--UGGCCACUUCCUGUUGCAACUGUAGCUGCUGGCCGUCAACAUCCGGCUUGCCAGCCAGGAGCAACCCA---GGCCAG
.((.(((..((((....)--))).........(((((..(((..(((((.(((((........))))).).)))))))..)))))...---))))). ( -32.20)
>consensus
AUGCGCC__CCGAUUUUU__UGGCCACUUCCUGCUGCAACUGCAGCUGCUGGCCGUUAACAUCCGGCUUGCCAGCCAGGAGCUAACCUG_UAGCCAG
..((.((....(((.((...((((((......(((((....)))))...))))))..)).))).((((....)))).)).))............... (-25.38 = -25.10 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:07 2006