Locus 5821

Sequence ID	2L_DroMel_CAF1
Location	16,494,742 – 16,494,870
Length	128
Max. P	0.998221

overview

Window 0

Location	16,494,742 – 16,494,839
Length	97
Sequences	4
Columns	112
Reading direction	forward
Mean pairwise identity	75.61
Mean single sequence MFE	-44.52
Consensus MFE	-19.80
Energy contribution	-22.11
Covariance contribution	2.31
Combinations/Pair	1.15
Mean z-score	-5.29
Structure conservation index	0.44
SVM decision value	2.40
SVM RNA-class probability	0.993476
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16494742 97 + 22407834
GCCAUUGUUGUUGGCGUAUCUGCUGCUCAUGUUGCUGUUGCAGUUGCAAUU-------------GCA-GUUGCUGUGGGCGA-GCAGAUUGCGUUUUAAAUUGCAGUGGCAU
((((((((.(((.(((((((((((((((((((.((((((((....)))...-------------)))-)).)).)))))).)-))))).)))))....))).)))))))).. ( -45.80)
>DroEre_CAF1 19522 109 + 1
GCCAUUGUUGUUGGCGUAUCUGCUGCUCAUGUUGCAGUUGCAGUGGCAAUUUUUGUUGCAGUUG-UA-GUUUCUGUGGGCGG-GCAGAUUGCGUUUUAAAUUGCAGUGGCAU
((((((((.(((.(((((((((((((((((((((((..(((((..(......)..)))))..))-))-)....))))))).)-))))).)))))....))).)))))))).. ( -46.90)
>DroWil_CAF1 59519 106 + 1
CCCCU-CCCGCUUGCCUCUUGGCUCUUGCUGCUGCUAUUGCAGCUUUAACUGCUGUG---GUUG-CAACUGGCUGUAGGCGUUGCAGAUUGCAU-UUAAAUUGCAGUGGCAU
.....-...((..(((....)))....))...(((((((((((.(((((.(((....---.(((-((((.(.(....).))))))))...))).-)))))))))))))))). ( -36.70)
>DroYak_CAF1 7604 109 + 1
GCCAUUGUUGUUGGCGUAUCUGCUGCUCAUGUUGCUGUUGCAGUUUCAAUUUUUGUUGCAGCUG-CA-GUUGCUGUGGGCGG-GAAGAUUGCGUUUUAAAUUGCAGUGGCAU
((((((((.(((.((((((((.((((((((...((..((((((((.((((....)))).)))))-))-)..)).))))))))-..))).)))))....))).)))))))).. ( -48.70)
>consensus
GCCAUUGUUGUUGGCGUAUCUGCUGCUCAUGUUGCUGUUGCAGUUGCAAUUUUUGUU___GUUG_CA_GUUGCUGUGGGCGG_GCAGAUUGCGUUUUAAAUUGCAGUGGCAU
((((((((.(((.((((((((((((((((((((((....)))))..............................)))))))..))))).)))))....))).)))))))).. (-19.80 = -22.11 +   2.31)

alignment

secondary structure

dotplot

Window 1

Location	16,494,779 – 16,494,870
Length	91
Sequences	4
Columns	106
Reading direction	forward
Mean pairwise identity	80.93
Mean single sequence MFE	-31.48
Consensus MFE	-21.04
Energy contribution	-21.72
Covariance contribution	0.69
Combinations/Pair	1.18
Mean z-score	-3.28
Structure conservation index	0.67
SVM decision value	3.04
SVM RNA-class probability	0.998221
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16494779 91 + 22407834
UUGCAGUUGCAAUU-------------GCA-GUUGCUGUGGGCGA-GCAGAUUGCGUUUUAAAUUGCAGUGGCAUUAAAUUUUGCAUGCAUUUUAUUGCAGUUGCA
.((((..(((((..-------------(((-(((((((....).)-))).)))))....((((.((((...(((........))).)))).)))))))))..)))) ( -30.10)
>DroEre_CAF1 19559 103 + 1
UUGCAGUGGCAAUUUUUGUUGCAGUUG-UA-GUUUCUGUGGGCGG-GCAGAUUGCGUUUUAAAUUGCAGUGGCAUUAAAUUUUGCAUGCACUUUAUUGCAGUUGCA
((((((..(((((....)))))..)))-))-)...(((....)))-(((.((((((...((((.((((...(((........))).)))).)))).))))))))). ( -30.30)
>DroWil_CAF1 59555 101 + 1
UUGCAGCUUUAACUGCUGUG---GUUG-CAACUGGCUGUAGGCGUUGCAGAUUGCAU-UUAAAUUGCAGUGGCAUUAAAUUUUGUAUGCAUUUUAUUGCAGUUUGU
((((((((.....(((....---...)-))...)))))))).....((((((((((.-.((((.((((...(((........))).)))).)))).)))))))))) ( -32.50)
>DroYak_CAF1 7641 103 + 1
UUGCAGUUUCAAUUUUUGUUGCAGCUG-CA-GUUGCUGUGGGCGG-GAAGAUUGCGUUUUAAAUUGCAGUGGCAUUAAAUUUUGCAUGCAUUUUAUUGCAGUUGCA
.(((((((.((((....)))).)))))-))-((.((((..(((((-.....))))....((((.((((...(((........))).)))).)))))..)))).)). ( -33.00)
>consensus
UUGCAGUUGCAAUUUUUGUU___GUUG_CA_GUUGCUGUGGGCGG_GCAGAUUGCGUUUUAAAUUGCAGUGGCAUUAAAUUUUGCAUGCAUUUUAUUGCAGUUGCA
((((((((((.....................))))))))))........(((((((...((((.((((...(((........))).)))).)))).)))))))... (-21.04 = -21.72 +   0.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:52 2006