Locus 4872

Sequence ID 3R_DroMel_CAF1
Location 12,817,343 – 12,817,462
Length 119
Max. P 0.632302
window7978

overview

Window 8

Location 12,817,343 – 12,817,462
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.73
Mean single sequence MFE -40.62
Consensus MFE -29.38
Energy contribution -30.00
Covariance contribution 0.62
Combinations/Pair 1.21
Mean z-score -1.70
Structure conservation index 0.72
SVM decision value 0.20
SVM RNA-class probability 0.632302
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12817343 119 + 27905053
CGCACUUUUCAUUCAUGGCCCCGUUUUUUGGGUCCACGGA-AACCGGGCGAUUGGGAGCAACCCACUGACGUGGUCUGCACCUGUUUGAAGCCGGGAAAAGCCAAAAACUCACCCGACCA
....((((((.(((.(((.((((.....)))).))).)))-..((((.(((..(((.(((..((((....))))..))).)))..)))...))))))))))................... ( -39.20)
>DroSim_CAF1 194115 120 + 1
GGCACUUUUCAUUCAUGGCCCCAUUUUUUGGGUCCACGGAAAACCGGACGAUUGGGAGCAACCCACUGACGUGGUCUGCACCCCUUUGGAGCCUGGAAAGGCUUAAAACUCACCCGUCCA
((...(((((.....(((.((((.....)))).)))..)))))))(((((...(((.(((..((((....))))..))).))).....((((((....))))))..........))))). ( -46.70)
>DroEre_CAF1 200827 119 + 1
GGCACUUUUCAUACAUGCCCUCAUUUUUUAGGUCCACGGAAGCCCGGACGAUUGGGAGCAAC-CACUGACGUGGUCUGCACCUGCUUGGAGCCGGGAAAAGCCGAAAACUCACCCGACCA
((((...........))))...........((((...((...(((((.(((..(((.(((((-(((....))))).))).)))..)))...))))).....))((....))....)))). ( -38.70)
>DroYak_CAF1 193379 119 + 1
GGCACUUUUCAUUCAUGCCCCCAUUUUUUGGGUCCACGGAAAACCGGAUGAUUGGUAGCAAC-CACUGACGUGGUCUGUACCCGCUUGGAGUCGGGAAAAGGCGAAAACUCACCCGACCA
((((((..((((((.((..((((.....))))..)).((....))))))))..))).(((((-(((....))))).)))....)))..(.((((((...((.......))..))))))). ( -37.90)
>consensus
GGCACUUUUCAUUCAUGCCCCCAUUUUUUGGGUCCACGGAAAACCGGACGAUUGGGAGCAAC_CACUGACGUGGUCUGCACCCGCUUGGAGCCGGGAAAAGCCGAAAACUCACCCGACCA
....((((((.(((.(((.((((.....)))).))).)))...((((.(((..(((.(((..((((....))))..))).)))..)))...))))))))))................... (-29.38 = -30.00 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:53 2006