Locus 9143

Sequence ID	3R_DroMel_CAF1
Location	24,395,192 – 24,395,287
Length	95
Max. P	0.898511

overview

Window 9

Location	24,395,192 – 24,395,287
Length	95
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	80.75
Mean single sequence MFE	-25.75
Consensus MFE	-16.15
Energy contribution	-16.49
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.10
Structure conservation index	0.63
SVM decision value	0.63
SVM RNA-class probability	0.806064
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24395192 95 + 27905053
UUGGCAGUCGUGGGCGUCGUGCUUCGAUUGUUUAUUAUUAUCACCUACAGGUGUCGUUCCAUAAACAUUUUCAAACAUGACGACAACAUCACCGG----------------------
.(((..((.((...(((((((.((.((.(((((((......((((....)))).......)))))))...)).)))))))))...))))..))).---------------------- ( -23.92)
>DroVir_CAF1 209362 92 + 1
UUGGCAGUCGUA---GUCGUGCUUCGAUUGUUUAUUAUUAUCACCUACAGGUGUCGCUUCAUAAACAUUUUCAAACAAAACGACGAAGUCGACUG----------------------
....((((((..---(((((.....((.(((((((......((((....)))).......)))))))...)).......))))).....))))))---------------------- ( -24.02)
>DroGri_CAF1 204693 91 + 1
UUGGAAGUCGUA---GUCGUGCUUCAAUUGUUUAUUAUUAUCACCUACAGGUGUCGCUUCAUAAACAUUUUCAAACAAAACGACGACUGCGAUG-----------------------
......((((((---(((((........(((((((......((((....)))).......)))))))((((.....))))..))))))))))).----------------------- ( -24.22)
>DroEre_CAF1 231824 102 + 1
UUGGCUGUCGUGGGCGUCGUGCUUCGAUUGUUUAUUAUUAUCACCUACAGGUGUCGUUCCAUAAACAUUUUCAAACAUGACGACAACAUCACCGG---CA------CCAGC------
((((.((((((((.(((((((.((.((.(((((((......((((....)))).......)))))))...)).)))))))))......))).)))---))------)))).------ ( -30.42)
>DroMoj_CAF1 184709 91 + 1
UUGGCAGUCGUA---GUCGUGCUUCGAUUGUUUAUUAUUAUCACCUACAGGUGUCGCUUCAUAAACAUUUUCAAACAAAACAACGACUUCGACU-----------------------
.....(((((.(---(((((.....((.(((((((......((((....)))).......)))))))...))..........)))))).)))))----------------------- ( -22.68)
>DroAna_CAF1 220737 117 + 1
UUGGCAGUCGUGGGCGUCGUGCUUCGAUUGUUUAUUAUUAUCACCUACAGGUGUCGCUUCAUAAACAUUUUCAAACAUGACGACAACAUCGGCAACUGCAACAACAGCAACAAUCGC
...(((((.((.(((((((((.((.((.(((((((......((((....)))).......)))))))...)).)))))))))......)).)).))))).................. ( -29.22)
>consensus
UUGGCAGUCGUA___GUCGUGCUUCGAUUGUUUAUUAUUAUCACCUACAGGUGUCGCUUCAUAAACAUUUUCAAACAAAACGACAACAUCGACGG______________________
......(((((....((((.....))))(((((((......((((....)))).......)))))))............)))))................................. (-16.15 = -16.49 +   0.33)

alignment

secondary structure

dotplot

Window 0

Location	24,395,192 – 24,395,287
Length	95
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	80.75
Mean single sequence MFE	-27.68
Consensus MFE	-19.74
Energy contribution	-19.27
Covariance contribution	-0.47
Combinations/Pair	1.12
Mean z-score	-2.22
Structure conservation index	0.71
SVM decision value	1.00
SVM RNA-class probability	0.898511
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24395192 95 - 27905053
----------------------CCGGUGAUGUUGUCGUCAUGUUUGAAAAUGUUUAUGGAACGACACCUGUAGGUGAUAAUAAUAAACAAUCGAAGCACGACGCCCACGACUGCCAA
----------------------..(((...(((((((((.(((((((...(((((((.......((((....))))......))))))).)).))))).))))...))))).))).. ( -26.42)
>DroVir_CAF1 209362 92 - 1
----------------------CAGUCGACUUCGUCGUUUUGUUUGAAAAUGUUUAUGAAGCGACACCUGUAGGUGAUAAUAAUAAACAAUCGAAGCACGAC---UACGACUGCCAA
----------------------((((((...((((.((((((.(((....((((.....)))).((((....))))...........))).)))))))))).---..)))))).... ( -25.00)
>DroGri_CAF1 204693 91 - 1
-----------------------CAUCGCAGUCGUCGUUUUGUUUGAAAAUGUUUAUGAAGCGACACCUGUAGGUGAUAAUAAUAAACAAUUGAAGCACGAC---UACGACUUCCAA
-----------------------....(.((((((.(((.(((((.((..(((((((.......((((....))))......))))))).)).))))).)))---.)))))).)... ( -24.82)
>DroEre_CAF1 231824 102 - 1
------GCUGG------UG---CCGGUGAUGUUGUCGUCAUGUUUGAAAAUGUUUAUGGAACGACACCUGUAGGUGAUAAUAAUAAACAAUCGAAGCACGACGCCCACGACAGCCAA
------((...------.)---).(((..((((((((((.(((((((...(((((((.......((((....))))......))))))).)).))))).))))...))))))))).. ( -28.02)
>DroMoj_CAF1 184709 91 - 1
-----------------------AGUCGAAGUCGUUGUUUUGUUUGAAAAUGUUUAUGAAGCGACACCUGUAGGUGAUAAUAAUAAACAAUCGAAGCACGAC---UACGACUGCCAA
-----------------------(((((.((((((.((((((.(((....((((.....)))).((((....))))...........))).)))))))))))---).)))))..... ( -28.60)
>DroAna_CAF1 220737 117 - 1
GCGAUUGUUGCUGUUGUUGCAGUUGCCGAUGUUGUCGUCAUGUUUGAAAAUGUUUAUGAAGCGACACCUGUAGGUGAUAAUAAUAAACAAUCGAAGCACGACGCCCACGACUGCCAA
((((((((.((....)).))))))))....(((((((((.(((((((...(((((((.......((((....))))......))))))).)).))))).))))...)))))...... ( -33.22)
>consensus
______________________CCGUCGAUGUCGUCGUCAUGUUUGAAAAUGUUUAUGAAGCGACACCUGUAGGUGAUAAUAAUAAACAAUCGAAGCACGAC___CACGACUGCCAA
..............................(((((.(((.(((((((...(((((((.......((((....))))......))))))).)).))))).)))....)))))...... (-19.74 = -19.27 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:27:33 2006