Locus 3956

Sequence ID 2R_DroMel_CAF1
Location 13,050,156 – 13,050,253
Length 97
Max. P 0.933450
window6389

overview

Window 9

Location 13,050,156 – 13,050,253
Length 97
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.57
Mean single sequence MFE -28.87
Consensus MFE -20.66
Energy contribution -21.38
Covariance contribution 0.73
Combinations/Pair 1.17
Mean z-score -1.92
Structure conservation index 0.72
SVM decision value 1.23
SVM RNA-class probability 0.933450
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13050156 97 - 20766785
CGAUGGGUUGAAAAGUGCGUAAAUGGCUUGUCCAGACGAGCAAAUCGCAACAGCUGAUGCAGCAGCAUCUCGAG------AAA--AGCGAACAGGCAACUGUAAA
(((..(((((.....((((......((((((....))))))....)))).)))))(((((....))))))))..------...--.....((((....))))... ( -30.30)
>DroPse_CAF1 26950 99 - 1
CG---UGCUGAAAAGUGCGUCUGGGUGUCGCCUAUGCGACUAAAUUGCAACAGCUGAUGCAGCA---UCUUAAGCCCUCUAACUCCGACAACAGUCGACUGUAAG
.(---..((....))..)(((.(((((((((....)))))............((((...)))).---......)))).........(((....))))))...... ( -28.60)
>DroSim_CAF1 20279 97 - 1
CGAUGGGUUGAAAAGUGCGUAAAUGGCUUGGCCAGACGAGCAAAUCGCAACAGCUGAUGCAGCAGCAUCUCGAG------AAA--AGCGAACAGGCAACUGUAAA
(((..(((((.....((((......(((((......)))))....)))).)))))(((((....))))))))..------...--.....((((....))))... ( -29.50)
>DroEre_CAF1 22280 97 - 1
CGAUGGGUUGAAAAGUGCGUAAAUGGCUUGGCCAGACGAGCAAAUCGCAACAGCUGAUGCAGCAGCAUCUUAAG------AAA--AGCGAACAGGCAACUGUAAA
((...(((((.....((((......(((((......)))))....)))).)))))(((((....))))).....------...--..)).((((....))))... ( -28.20)
>DroYak_CAF1 22938 97 - 1
CGAUGGUUUGAAAAGUGCGUUAAUGGCUUGGCCAGGCGAGCAAAUCGCAACAGCUGAUGCAGCAGCAUCUCGAG------AAA--AGCGAACAGGCAACUGUAAA
((....(((((...(((((((..((((...)))).((((.....))))))).((((...)))).)))).)))))------...--..)).((((....))))... ( -28.00)
>DroPer_CAF1 25455 99 - 1
CG---UGCUGAAAAGUGCGUCUGGGUGUCGCCUAUGCGACUAAAUUGCAACAGCUGAUGCAGCA---UCUUAAGCCCUCUAACUCCGACAACAGUCGACUGUAAG
.(---..((....))..)(((.(((((((((....)))))............((((...)))).---......)))).........(((....))))))...... ( -28.60)
>consensus
CGAUGGGUUGAAAAGUGCGUAAAUGGCUUGGCCAGACGAGCAAAUCGCAACAGCUGAUGCAGCAGCAUCUCAAG______AAA__AGCGAACAGGCAACUGUAAA
.....(((((.....((((......(((((......)))))....)))).)))))(((((....))))).....................((((....))))... (-20.66 = -21.38 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:16 2006