Locus 1992

Sequence ID 2R_DroMel_CAF1
Location 7,514,910 – 7,515,023
Length 113
Max. P 0.572431
window3289

overview

Window 9

Location 7,514,910 – 7,515,023
Length 113
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 83.07
Mean single sequence MFE -24.10
Consensus MFE -16.24
Energy contribution -16.44
Covariance contribution 0.20
Combinations/Pair 1.21
Mean z-score -1.69
Structure conservation index 0.67
SVM decision value 0.08
SVM RNA-class probability 0.572431
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7514910 113 + 20766785
UUAUGUAAGACAUUCUUCAGCAUUUAAUUUGAAAUUUCUGC-UCUUUUUCGAUUUGUUUUCCCGCCAAAAAUAGCUUGAAAAAAGUUAGAGGCGCGUUUUGAAUGUGUCCUUUG
...((.(((.....)))))((((((((..((...(((((((-(.((((((((.(((((((.......))))))).)))))))))).))))))..))..))))))))........ ( -21.50)
>DroSec_CAF1 10337 104 + 1
U---------CAUUUUUCAGCAUUUAAUUUGAAAUGUCAGC-UUUUUUUCGAUUUGUUUUCCAGCCAGAAAUAGCUUGAACAAAGUUGGCAGCACGUUUUGAAAUUGUCCUUUG
.---------.........((((((((..((...(((((((-(((..(((((.(((((((.......))))))).))))).))))))))))...))..)))))..)))...... ( -20.20)
>DroSim_CAF1 10068 113 + 1
UUAUAUAAGACAUUUUUCAGCAUUUAAUUUGAAAUGUCAGC-UUUUUUUCGCUUUCUUUUCCCGCCAGAAAUGGCUUGAAAAAAGUUGGCAGCACGUUUUGAAUUUGUCCUUUG
........((((...(((((.....(((.((...(((((((-(((((((..............((((....))))..)))))))))))))).)).))))))))..))))..... ( -26.69)
>DroEre_CAF1 10895 114 + 1
GUAUGGCACACGUUCUUCAGCAUUUCAUUUGAAAUGUCAGCAUUUUUUUCAAAUUGUUUUCCCGCCAAAAAUAGCUUGAAAAAAGUUGACAGCACGUUUUGAACUUGUCCUUUG
....((.(((.((((...((((((((....)))))((((((..(((((((((.(((((((.......))))))).))))))))))))))).....)))..)))).))))).... ( -28.40)
>DroYak_CAF1 10477 112 + 1
GUAUUGCUAAUA-UAUUCAGCAUUUAAUUUGAAAUGGCAGC-UUUUUUUCAAAUUGUUUUUCCGCCAAAAAUAGCUUGAAAAAAGUUGGCAACUCGUUUUAAACUUGUCCUUUG
....((((....-.....))))(((((..(((..((.((((-((((((.(((.((((((((.....)))))))).))))))))))))).))..)))..)))))........... ( -23.70)
>consensus
UUAUGGAAGACAUUCUUCAGCAUUUAAUUUGAAAUGUCAGC_UUUUUUUCGAUUUGUUUUCCCGCCAAAAAUAGCUUGAAAAAAGUUGGCAGCACGUUUUGAACUUGUCCUUUG
...................((((((((..((...(((((((..(((((((((.(((((((.......))))))).))))))))))))))))...))..)))))..)))...... (-16.24 = -16.44 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:12 2006