Locus 319

Sequence ID	2R_DroMel_CAF1
Location	2,116,269 – 2,116,364
Length	95
Max. P	0.949960

overview

Window 6

Location	2,116,269 – 2,116,364
Length	95
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	80.75
Mean single sequence MFE	-38.75
Consensus MFE	-17.40
Energy contribution	-16.83
Covariance contribution	-0.56
Combinations/Pair	1.42
Mean z-score	-2.97
Structure conservation index	0.45
SVM decision value	0.64
SVM RNA-class probability	0.808276
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2116269 95 + 20766785
CGGGCC--GCCACUUGUCGCGGCGUCGACUUCAACUUCGGUUUGAGUUCGAAUUCGAGUUCGGAUU------CUUGCUCAUUUCGUAUGCCGUUAGGCGGCCC--
.(((((--(((.......((((((((((....(((....)))(((((..(((((((....))))))------)..)))))..))).)))))))..))))))))-- ( -47.00)
>DroPse_CAF1 111025 105 + 1
CGGCCGGUGGCACUUGUCUCGCGGCCGACUCCGACUCGGACUCGGACUCGGACUCGGACUCGGACUACGAGUACGCCUCAUUUCGUAUGCCGUUAGGCGGCCCCG
.((((.(.(((....((((((..(((((.(((((.((.((.......)).)).))))).)))).)..)))).))))).).........(((....)))))))... ( -43.20)
>DroSec_CAF1 95009 95 + 1
CGGGCC--GCCACUUGUCGCGGCGUCGACUUCAACUUCGGUUUGAGUUCGAAUUCGAGUUUGGAUU------CUUGCUCAUUUCGUAUGCCGUUAGGCGGCCC--
.(((((--(((.......((((((((((....(((....)))(((((..(((((((....))))))------)..)))))..))).)))))))..))))))))-- ( -44.20)
>DroSim_CAF1 98304 95 + 1
CGGGCC--GCCACUUGUCGCGGCGUCGACUUCAACUUCGGUUUGAGUUCGAAUUCGAGUUCGGAUU------CUUGCUCAUUUCGUAUGCCGUUAGGCGGCCC--
.(((((--(((.......((((((((((....(((....)))(((((..(((((((....))))))------)..)))))..))).)))))))..))))))))-- ( -47.00)
>DroEre_CAF1 93329 87 + 1
CGGACC--GCCACUUGUC--------GACUUCAACAUCGGUCUGAGUUCAAAUUCGAGUUCAGAUU------CUUGCUCAUUUCGUAUGCCGUUAGGCGGCCC--
.((.((--(((((....(--------((......((..(((((((..((......))..)))))))------..))......)))......))..))))))).-- ( -23.80)
>DroYak_CAF1 97053 95 + 1
CGGACC--GCCACUUGUCGCGGCCUCGAAUUCAACAUCGAUUUGAGUUCAAAUUUGAGUUCGGAUU------CUCGCUCAUUUCGUAUGCCGUUAGACGGCCC--
.((.((--((........)))))).............(((..(((((...((((((....))))))------...)))))..)))...((((.....))))..-- ( -27.30)
>consensus
CGGGCC__GCCACUUGUCGCGGCGUCGACUUCAACUUCGGUUUGAGUUCGAAUUCGAGUUCGGAUU______CUUGCUCAUUUCGUAUGCCGUUAGGCGGCCC__
((((....((.....((((......)))).........(((((((..(((....)))..))))))).........))....))))...((((.....)))).... (-17.40 = -16.83 +  -0.56)

alignment

secondary structure

dotplot

Window 7

Location	2,116,269 – 2,116,364
Length	95
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	80.75
Mean single sequence MFE	-37.75
Consensus MFE	-24.59
Energy contribution	-25.40
Covariance contribution	0.81
Combinations/Pair	1.33
Mean z-score	-3.04
Structure conservation index	0.65
SVM decision value	1.40
SVM RNA-class probability	0.949960
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2116269 95 - 20766785
--GGGCCGCCUAACGGCAUACGAAAUGAGCAAG------AAUCCGAACUCGAAUUCGAACUCAAACCGAAGUUGAAGUCGACGCCGCGACAAGUGGC--GGCCCG
--((((((((....)))...((...((((...(------(((.((....)).))))...))))...))..((((....))))(((((.....)))))--))))). ( -39.80)
>DroPse_CAF1 111025 105 - 1
CGGGGCCGCCUAACGGCAUACGAAAUGAGGCGUACUCGUAGUCCGAGUCCGAGUCCGAGUCCGAGUCCGAGUCGGAGUCGGCCGCGAGACAAGUGCCACCGGCCG
...(((((((....)))...........(((((.((((..(.((((.(((((.((.((.......)).)).))))).)))))..))))))....)))...)))). ( -47.90)
>DroSec_CAF1 95009 95 - 1
--GGGCCGCCUAACGGCAUACGAAAUGAGCAAG------AAUCCAAACUCGAAUUCGAACUCAAACCGAAGUUGAAGUCGACGCCGCGACAAGUGGC--GGCCCG
--((((((((....)))...((...((((...(------(((.(......).))))...))))...))..((((....))))(((((.....)))))--))))). ( -37.00)
>DroSim_CAF1 98304 95 - 1
--GGGCCGCCUAACGGCAUACGAAAUGAGCAAG------AAUCCGAACUCGAAUUCGAACUCAAACCGAAGUUGAAGUCGACGCCGCGACAAGUGGC--GGCCCG
--((((((((....)))...((...((((...(------(((.((....)).))))...))))...))..((((....))))(((((.....)))))--))))). ( -39.80)
>DroEre_CAF1 93329 87 - 1
--GGGCCGCCUAACGGCAUACGAAAUGAGCAAG------AAUCUGAACUCGAAUUUGAACUCAGACCGAUGUUGAAGUC--------GACAAGUGGC--GGUCCG
--((((((((...((((((.....)))......------..(((((..(((....)))..)))))))).(((((....)--------))))...)))--))))). ( -30.40)
>DroYak_CAF1 97053 95 - 1
--GGGCCGUCUAACGGCAUACGAAAUGAGCGAG------AAUCCGAACUCAAAUUUGAACUCAAAUCGAUGUUGAAUUCGAGGCCGCGACAAGUGGC--GGUCCG
--((((((((....)))...((((.(.((((((------........)))..(((((....)))))....))).).))))..(((((.....)))))--))))). ( -31.60)
>consensus
__GGGCCGCCUAACGGCAUACGAAAUGAGCAAG______AAUCCGAACUCGAAUUCGAACUCAAACCGAAGUUGAAGUCGACGCCGCGACAAGUGGC__GGCCCG
..((((((((....)))..........................(((..((((.((((.........)))).))))..)))..(((((.....)))))..))))). (-24.59 = -25.40 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:21 2006