Locus 9912

Sequence ID 3R_DroMel_CAF1
Location 26,476,332 – 26,476,441
Length 109
Max. P 0.738444
window15805

overview

Window 5

Location 26,476,332 – 26,476,441
Length 109
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 68.17
Mean single sequence MFE -26.58
Consensus MFE -15.22
Energy contribution -16.42
Covariance contribution 1.20
Combinations/Pair 1.40
Mean z-score -1.37
Structure conservation index 0.57
SVM decision value 0.44
SVM RNA-class probability 0.738444
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26476332 109 + 27905053
AACUAAGCGCCUACGAUUGGUUUCGGGAGUUCUGCGAGAACGAUAUCAUUUACUUGUAGC--CGGAUUCUCGGAACAUUUAUUCAAUGCUUCA----AAUUUAUU--CAAAUUGCAG
....(((((..........(((((((((((((((((((..............))))))).--..))))))))))))..........)))))..----........--.......... ( -23.29)
>DroSec_CAF1 68250 109 + 1
AACUUAGCGCCUACGAUUGGUUUCGGGAGUUCUGCGAGAACGAGAUCAUUUACUUGUAGC--CGGACUCCCGAAACUUUUAUUCAAUGAUUCA----AAUUUAUU--CAAAUUGCAG
......((......((..((((((((((((((.((....(((((........))))).))--.)))))))))))))).....))..(((....----.......)--))....)).. ( -32.30)
>DroSim_CAF1 68699 108 + 1
AAUUAAGCGCCUACGAUUGGUUUCGGGAGUUUUGCGAGAACGAGAUCAUUUACUUGUAGC--CGGACUCUCGAAACUUUU-UUCAAUCAUUCA----AAUUUAUU--CAAAUUGCAG
......((......(((((((((((((((((..((....(((((........))))).))--..))))))))))))....-..))))).....----(((((...--.))))))).. ( -28.60)
>DroEre_CAF1 76472 101 + 1
AGCUAAGCCGCUACAGUUGGUUUCGGGAGUUCUGCGAGAACGAGACCAUUUACUUGUAGA--CGGACUCUGGAAACUUUUCUAUAAUGAGCCCGUG--------------AUUUCUG
..........(((((((((((((((....(((...)))..))))))))...)).)))))(--(((.((((((((....)))))....))).)))).--------------....... ( -25.00)
>DroYak_CAF1 72690 115 + 1
AACUAAGCGAAUACGAGUGGUUUCGCGAGUACUGCGAGAACGAGCCAAUUUACUUGUAGA--CGUACUCGCGAAACUUUUCUAUAAUGAGCCAGUGGAGUUUUUGCCAAAAUUGCAG
......((((....(((.((((((((((((((..(....(((((........))))).).--.)))))))))))))).))).............(((........)))...)))).. ( -34.40)
>DroMoj_CAF1 94112 101 + 1
AGCUAGAGAAAUACCCAUGGUUUUACGAUUUCUGCUCAAACCAACGCAUUGAAAUCUAAACCUGC--UUCCGCACCU---A-CCGACUCUUUA----AAUUUAUG--UAUA----AG
...((((((.........(((((...(((((((((..........)))..)))))).)))))(((--....)))...---.-.....))))))----........--....----.. ( -15.90)
>consensus
AACUAAGCGCCUACGAUUGGUUUCGGGAGUUCUGCGAGAACGAGAUCAUUUACUUGUAGA__CGGACUCUCGAAACUUUUAUUCAAUGAUUCA____AAUUUAUU__CAAAUUGCAG
..................((((((((((((((((((((..............))))))).....)))))))))))))........................................ (-15.22 = -16.42 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:44 2006