Locus 870

Sequence ID 2R_DroMel_CAF1
Location 4,024,281 – 4,024,385
Length 104
Max. P 0.749663
window1504

overview

Window 4

Location 4,024,281 – 4,024,385
Length 104
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.35
Mean single sequence MFE -38.48
Consensus MFE -27.38
Energy contribution -26.62
Covariance contribution -0.75
Combinations/Pair 1.22
Mean z-score -1.81
Structure conservation index 0.71
SVM decision value 0.47
SVM RNA-class probability 0.749663
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4024281 104 - 20766785
CAGAGUGGAGAAAGUGGAAAUGGGA-----------AAGCGGAGGAAACG---AGCGGCAGUACACGCCAUUUUUAGGCGCUUUGUCUCUUU--UUCCCAGCCGGUCUGUUUGCAUUUGU
(((((..((.(.(.(((...(((((-----------((((...(....).---.))(((((....((((.......))))..)))))....)--)))))).))).).).))..).)))). ( -34.40)
>DroSec_CAF1 7072 103 - 1
CAGCGCGGAGAAAGUGGAAAUGGGA-----------AAGCGGAGGAAACG---AGCGGCAGUACACGCCAUUU-UCGGCGCUUUGUCUCUUU--UCCUCCGCCGCUCUGUUUGCAUUUGU
...........(((((.(((((((.-----------..(((((((((..(---((.(((((....((((....-..))))..))))).))))--))))))))...))))))).))))).. ( -39.00)
>DroSim_CAF1 9131 103 - 1
CAGCGCGGAGAAAGUGGAAAUGGGA-----------AAGCGGAGGAAACG---AGCGGCAGUACACGCCAUUU-UCGGCGCUUUGUCUCUUU--UCCUCCGCCGCUCUGUUUGCAUUUGU
...........(((((.(((((((.-----------..(((((((((..(---((.(((((....((((....-..))))..))))).))))--))))))))...))))))).))))).. ( -39.00)
>DroYak_CAF1 8855 120 - 1
CAGCGCGGAGAAAGUGGAAAUGGAAAUGGAGUGCAAAAGGGAAGGGGACGACCAGUGGCAGUACACGCCAUUUUUCGGCGCUUUGUCUUUUUUUUUUCUCUCCGCUCUGUUUGCAUUUGU
(((.(((((((.((..((((.(((...(((((((.....((..(....)..))((((((.......)))))).....))))))).))).))))..)).))))))).)))........... ( -41.50)
>consensus
CAGCGCGGAGAAAGUGGAAAUGGGA___________AAGCGGAGGAAACG___AGCGGCAGUACACGCCAUUU_UCGGCGCUUUGUCUCUUU__UCCCCCGCCGCUCUGUUUGCAUUUGU
....(((((.(.(((((....((((.............((...(....).....))(((((....((((.......))))..))))).......))))...))))).).)))))...... (-27.38 = -26.62 +  -0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:23 2006