Locus 2966

Sequence ID	2R_DroMel_CAF1
Location	10,229,181 – 10,229,281
Length	100
Max. P	0.925382

overview

Window 5

Location	10,229,181 – 10,229,281
Length	100
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	95.42
Mean single sequence MFE	-26.86
Consensus MFE	-26.32
Energy contribution	-25.76
Covariance contribution	-0.56
Combinations/Pair	1.12
Mean z-score	-1.05
Structure conservation index	0.98
SVM decision value	0.16
SVM RNA-class probability	0.613898
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10229181 100 + 20766785
AGCGUUAGUUGAACUCCCAUUGUUGGCUUAACCCCCAACUGCGAUUAACCCCCUGUGAUUACCGUGGCUUGUGUGGUGCUUUUCCGCACCACUCCGCUU-C
...((((((((..........(((((........)))))..))))))))..............((((.....(((((((......))))))).))))..-. ( -26.60)
>DroSec_CAF1 58247 100 + 1
AGCGUUAGUUGAACUCCCAUUGUUGGCUUAACCCCCAACUGCGAUUAACCCCCUGUGAUUACCGUGGCUUGUGUGGUGCUUUUCCGCACCACUCCGCUG-C
...((((((((..........(((((........)))))..))))))))..............(..((..(.(((((((......))))))).).))..-) ( -27.40)
>DroSim_CAF1 58530 100 + 1
AACGUUAGUUGAACUCCCAUUGUUGGCUUAACCCCCAACUGCGAUUAACCCCCUGUGAUUACCGUGGCUUGUGUGGUGCUUUUCCGCACCACUCCGCUG-C
...((((((((..........(((((........)))))..))))))))..............(..((..(.(((((((......))))))).).))..-) ( -27.40)
>DroEre_CAF1 62970 101 + 1
CGCGUUAGUUGAACUCCCAUUGUUGGCUUAACCCCCGACCGCGAUUAACCCCCUGUGAUUACCGUGGCUUGUGUGGUGCUUUUCCGCACCACUUCGCCGUC
...((((((((..........(((((........)))))..))))))))................(((....(((((((......)))))))...)))... ( -26.60)
>DroYak_CAF1 58336 99 + 1
CGCGUUAGUUGAACUCCCAUUGUUGGCUUAACCCCCGACUGCGAUUAACCCCCUGUGAUUACCGUGGCUUGUGUGGUGCUUUUCCGCACCACUCCACCG--
...((((((((..........(((((........)))))..))))))))..............((((.....(((((((......))))))).))))..-- ( -26.30)
>consensus
AGCGUUAGUUGAACUCCCAUUGUUGGCUUAACCCCCAACUGCGAUUAACCCCCUGUGAUUACCGUGGCUUGUGUGGUGCUUUUCCGCACCACUCCGCUG_C
...((((((((..........(((((........)))))..))))))))..............((((.....(((((((......))))))).)))).... (-26.32 = -25.76 +  -0.56)

alignment

secondary structure

dotplot

Window 6

Location	10,229,181 – 10,229,281
Length	100
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	95.42
Mean single sequence MFE	-31.80
Consensus MFE	-29.34
Energy contribution	-29.42
Covariance contribution	0.08
Combinations/Pair	1.08
Mean z-score	-1.42
Structure conservation index	0.92
SVM decision value	1.17
SVM RNA-class probability	0.925382
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10229181 100 - 20766785
G-AAGCGGAGUGGUGCGGAAAAGCACCACACAAGCCACGGUAAUCACAGGGGGUUAAUCGCAGUUGGGGGUUAAGCCAACAAUGGGAGUUCAACUAACGCU
.-.((((..(((((((......))))))).....(((((((((((......)))).))))..(((((........)))))..)))............)))) ( -31.20)
>DroSec_CAF1 58247 100 - 1
G-CAGCGGAGUGGUGCGGAAAAGCACCACACAAGCCACGGUAAUCACAGGGGGUUAAUCGCAGUUGGGGGUUAAGCCAACAAUGGGAGUUCAACUAACGCU
(-(.((((.(((((((......)))))))...((((...((....))....))))..)))).(((((..(.....(((....))).....)..))))))). ( -32.50)
>DroSim_CAF1 58530 100 - 1
G-CAGCGGAGUGGUGCGGAAAAGCACCACACAAGCCACGGUAAUCACAGGGGGUUAAUCGCAGUUGGGGGUUAAGCCAACAAUGGGAGUUCAACUAACGUU
.-..((((.(((((((......)))))))...((((...((....))....))))..)))).(((((........)))))((((..((.....))..)))) ( -31.50)
>DroEre_CAF1 62970 101 - 1
GACGGCGAAGUGGUGCGGAAAAGCACCACACAAGCCACGGUAAUCACAGGGGGUUAAUCGCGGUCGGGGGUUAAGCCAACAAUGGGAGUUCAACUAACGCG
(((.((((.(((((((......)))))))...((((...((....))....))))..)))).)))(..((((.((((........).))).))))..)... ( -34.00)
>DroYak_CAF1 58336 99 - 1
--CGGUGGAGUGGUGCGGAAAAGCACCACACAAGCCACGGUAAUCACAGGGGGUUAAUCGCAGUCGGGGGUUAAGCCAACAAUGGGAGUUCAACUAACGCG
--..((((.(((((((......))))))).....))))((...((.((..((.((((((.(.....).)))))).)).....)).))..)).......... ( -29.80)
>consensus
G_CAGCGGAGUGGUGCGGAAAAGCACCACACAAGCCACGGUAAUCACAGGGGGUUAAUCGCAGUUGGGGGUUAAGCCAACAAUGGGAGUUCAACUAACGCU
....((((.(((((((......)))))))...((((...((....))....))))..)))).(((((..(.....(((....))).....)..)))))... (-29.34 = -29.42 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:11 2006