Locus 150

Sequence ID	3L_DroMel_CAF1
Location	465,917 – 466,055
Length	138
Max. P	0.546336

overview

Window 5

Location	465,917 – 466,021
Length	104
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	87.19
Mean single sequence MFE	-30.60
Consensus MFE	-22.60
Energy contribution	-23.36
Covariance contribution	0.76
Combinations/Pair	1.14
Mean z-score	-1.58
Structure conservation index	0.74
SVM decision value	0.03
SVM RNA-class probability	0.546336
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 465917 104 - 23771897
---GUGGC-------CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAGCAACUUGGAGUCAUUGGUAUCGCUGCAUUCAAAUCACCAG
---((((.-------.((.(((((((((....)))))))))))..((.((.(((((((((((..........)))))).((....))...))))))).)).......))))... ( -30.60)
>DroSec_CAF1 46787 104 - 1
---GUGGC-------CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAGCAACUUGGAGUCAUUGGUAUCGCUGCAUUCAAAUCACCAG
---((((.-------.((.(((((((((....)))))))))))..((.((.(((((((((((..........)))))).((....))...))))))).)).......))))... ( -30.60)
>DroSim_CAF1 47453 104 - 1
---GUGGC-------CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAGCAACUUGGAGUCAUUGGUAUCGCUGCAUUCAAAUCACCAG
---((((.-------.((.(((((((((....)))))))))))..((.((.(((((((((((..........)))))).((....))...))))))).)).......))))... ( -30.60)
>DroEre_CAF1 48861 112 - 1
CCAGUGGCCAGUGGUCAGUCGCAGAUGCAUUUGUAUCUACGCCGAGCUGCAGAUACAUA-UUUAAAUUAUAGAGCAG-UUGCAGUCAUUGGUAUCGCUGCAUUCAAAUCACUAU
.((((((((((((.((.(.((.((((((....)))))).))).))(((((((.....((-(.......)))......-))))))))))))))..)))))............... ( -30.70)
>DroYak_CAF1 48653 111 - 1
---GUGGCCAGUGGUCAGUCGCAGAUACAUUUGUAUCUACGCCGAGCUGCAGAUACAUAGUUCAAAUUAUAGAGCAACUUGCACAUGCUGGUAUCGCUGCAUUCAAAUCACCAG
---(..((..(..((..(.((.((((((....)))))).)).)..))..).(((((...((((........)))).....((....))..)))))))..).............. ( -30.50)
>consensus
___GUGGC_______CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAGCAACUUGGAGUCAUUGGUAUCGCUGCAUUCAAAUCACCAG
...(..((.......(((((((((((((....)))))))))....))))..(((((((((((..........)))))).((....))...)))))))..).............. (-22.60 = -23.36 +   0.76)

alignment

secondary structure

dotplot

Window 6

Location	465,957 – 466,055
Length	98
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	89.12
Mean single sequence MFE	-29.36
Consensus MFE	-24.18
Energy contribution	-24.42
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.36
Structure conservation index	0.82
SVM decision value	0.02
SVM RNA-class probability	0.541627
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 465957 98 - 23771897
GUAUUUGGUGUUACCUAAGUGGAUUUUCGCCCCA-------GUGGC-------CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAG
((((((((((...((.....)).....))))...-------(..((-------.((.(((((((((....)))))))))))..))..))))))).................. ( -30.70)
>DroSec_CAF1 46827 98 - 1
GUAUUUGGUGUUACCUAAGUGGAUUUUCGCCCCA-------GUGGC-------CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAG
((((((((((...((.....)).....))))...-------(..((-------.((.(((((((((....)))))))))))..))..))))))).................. ( -30.70)
>DroSim_CAF1 47493 98 - 1
GUAUUUGGUGUUACCUAAGUGGAUUUUCGCCCCA-------GUGGC-------CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAG
((((((((((...((.....)).....))))...-------(..((-------.((.(((((((((....)))))))))))..))..))))))).................. ( -30.70)
>DroEre_CAF1 48900 111 - 1
GUAUUUGGUGUUACCUAAGUGGAUUUUCGCCCCAGUAGCCAGUGGCCAGUGGUCAGUCGCAGAUGCAUUUGUAUCUACGCCGAGCUGCAGAUACAUA-UUUAAAUUAUAGAG
((((((((((...((.....)).....))))...(((((...((((..((((....))))((((((....))))))..)))).)))))))))))...-.............. ( -30.30)
>DroYak_CAF1 48693 105 - 1
GUAUUUGGUGUUACCUAAGUGGAUUUUCGCCCCA-------GUGGCCAGUGGUCAGUCGCAGAUACAUUUGUAUCUACGCCGAGCUGCAGAUACAUAGUUCAAAUUAUAGAG
((((((((((...((.....)).....)))).((-------(((((..((((....))))((((((....))))))..)))..)))).)))))).................. ( -24.40)
>consensus
GUAUUUGGUGUUACCUAAGUGGAUUUUCGCCCCA_______GUGGC_______CAGUCGCAGAUGCAUUUGUAUCUGCGCUAAGCUGCAGAUACGUUGUUAAAAUUAUAGAG
(((((((..(((((.....(((.........))).......))))).......(((((((((((((....)))))))))....))))))))))).................. (-24.18 = -24.42 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:55 2006