Locus 113

Sequence ID	X_DroMel_CAF1
Location	464,166 – 464,262
Length	96
Max. P	0.720882

overview

Window 9

Location	464,166 – 464,262
Length	96
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	83.25
Mean single sequence MFE	-28.78
Consensus MFE	-20.86
Energy contribution	-20.90
Covariance contribution	0.04
Combinations/Pair	1.08
Mean z-score	-1.80
Structure conservation index	0.72
SVM decision value	0.40
SVM RNA-class probability	0.720882
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 464166 96 + 22224390
ACUCAAUGGCUCUUUGUGGAUCCAUUGUGACUGGCAUUGCAGCCUAGCUGUCGGAAUAGCCGAA---UAUCCCAAUAGCCGAAAAGUCACAUGCAGAGC
.((((((((.(((....))).)))))(((((((((((((((((...))))((((.....)))).---.....)))).)))....)))))).....))). ( -30.00)
>DroSec_CAF1 66317 99 + 1
ACUCAAUGGCUCUUUGUGGAUCCAUUGUGACUGGCAUUGCAGCCGAGCUGUCGGAAAAGCCGAAUAAUAGCCCAAUAGCCGAAAAGUCACAUGCAGAGC
.((((((((.(((....))).)))))(((((((((((((((((...))))((((.....)))).........)))).)))....)))))).....))). ( -30.00)
>DroSim_CAF1 45359 96 + 1
ACUCAAUGGCUCUUUGUGGAUCCAUUGUGACUGGCAUUGCAGCCGAGCUGUCGGAAAAGCCGAA---UAGCCCAAUAGCCAAAAAGUCACAUGCAGAGC
.((((((((.(((....))).)))))(((((((((......)))(.((((((((.....))).)---)))).)...........)))))).....))). ( -31.90)
>DroEre_CAF1 78932 79 + 1
ACUCG-UGGGUCUUUGUGGAUCCAUUGUGACUGUCAUUGCAGCCGAGCUGUCGGAACA-------------------GCCGAAAAGUCACAUGCAGAGC
.((((-(((((((....))))))))(((((((.......((((...))))((((....-------------------.))))..)))))))....))). ( -28.30)
>DroYak_CAF1 65005 79 + 1
ACUCG-UGACUCUUUGUGGAUUCAUUGUGACUGUCAUUGCAGCCGAGCUGUCGGAAUA-------------------GCCGAGAAGUCACAUGCAGAGC
.((((-(((.(((....))).))))(((((((.((....((((...))))((((....-------------------.)))))))))))))....))). ( -23.70)
>consensus
ACUCAAUGGCUCUUUGUGGAUCCAUUGUGACUGGCAUUGCAGCCGAGCUGUCGGAAAAGCCGAA___UA_CCCAAUAGCCGAAAAGUCACAUGCAGAGC
.((((((((.(((....))).)))))((((((.......((((...))))((((........................))))..)))))).....))). (-20.86 = -20.90 +   0.04)

alignment

secondary structure

dotplot

Window 0

Location	464,166 – 464,262
Length	96
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	83.25
Mean single sequence MFE	-27.74
Consensus MFE	-18.58
Energy contribution	-18.10
Covariance contribution	-0.48
Combinations/Pair	1.08
Mean z-score	-1.63
Structure conservation index	0.67
SVM decision value	-0.05
SVM RNA-class probability	0.508646
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 464166 96 - 22224390
GCUCUGCAUGUGACUUUUCGGCUAUUGGGAUA---UUCGGCUAUUCCGACAGCUAGGCUGCAAUGCCAGUCACAAUGGAUCCACAAAGAGCCAUUGAGU
((((.....((((((....((((.((((((((---......)))))))).)))).(((......)))))))))(((((.((......)).))))))))) ( -33.60)
>DroSec_CAF1 66317 99 - 1
GCUCUGCAUGUGACUUUUCGGCUAUUGGGCUAUUAUUCGGCUUUUCCGACAGCUCGGCUGCAAUGCCAGUCACAAUGGAUCCACAAAGAGCCAUUGAGU
((((.....((((((...........(((((.....((((.....)))).)))))(((......)))))))))(((((.((......)).))))))))) ( -29.60)
>DroSim_CAF1 45359 96 - 1
GCUCUGCAUGUGACUUUUUGGCUAUUGGGCUA---UUCGGCUUUUCCGACAGCUCGGCUGCAAUGCCAGUCACAAUGGAUCCACAAAGAGCCAUUGAGU
((((.....((((((...........(((((.---.((((.....)))).)))))(((......)))))))))(((((.((......)).))))))))) ( -31.30)
>DroEre_CAF1 78932 79 - 1
GCUCUGCAUGUGACUUUUCGGC-------------------UGUUCCGACAGCUCGGCUGCAAUGACAGUCACAAUGGAUCCACAAAGACCCA-CGAGU
((((....(((((((..(((..-------------------(((.((((....))))..))).))).))))))).(((.((......)).)))-.)))) ( -22.90)
>DroYak_CAF1 65005 79 - 1
GCUCUGCAUGUGACUUCUCGGC-------------------UAUUCCGACAGCUCGGCUGCAAUGACAGUCACAAUGAAUCCACAAAGAGUCA-CGAGU
((((....(((((((((...((-------------------....((((....))))..))...)).))))))).(((.((......)).)))-.)))) ( -21.30)
>consensus
GCUCUGCAUGUGACUUUUCGGCUAUUGGG_UA___UUCGGCUAUUCCGACAGCUCGGCUGCAAUGCCAGUCACAAUGGAUCCACAAAGAGCCAUUGAGU
((((....(((((((..((((........................))))((((...)))).......))))))).(((.((......)).)))..)))) (-18.58 = -18.10 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:38 2006