Locus 1279

Sequence ID 2L_DroMel_CAF1
Location 3,407,456 – 3,407,555
Length 99
Max. P 0.858337
window2088

overview

Window 8

Location 3,407,456 – 3,407,555
Length 99
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 78.41
Mean single sequence MFE -31.59
Consensus MFE -22.17
Energy contribution -22.20
Covariance contribution 0.03
Combinations/Pair 1.36
Mean z-score -1.58
Structure conservation index 0.70
SVM decision value 0.82
SVM RNA-class probability 0.858337
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3407456 99 + 22407834
---CCUACCAAAA-------CCUACAUGGGAUUUCUGGUGUCGGGUAUAUCCCGAUUGCUGGGCAGAGCAUCGCUGGCCUCCUGAUUGAAGCGAUUCCUAAUAUAGGGA
---..........-------((((..(((((..((..((((((((.....))))).)))..))......((((((..............)))))))))))...)))).. ( -28.14)
>DroVir_CAF1 61281 96 + 1
------AUUUUCA-------CUUACAUGGGAUUCCGGGUGUCGGGUAUUUCACGAUUGCUGGGCAGCGCAUCGCUGGCUUCCUGAUUGAAGCGAUUCCGUAUGUACGGA
------.......-------(.(((((((((.(((((..((((((....)).))))..)))))(((((...)))))(((((......)))))...))).)))))).).. ( -28.70)
>DroPse_CAF1 41844 107 + 1
GUCUCU--CAAAAUCUCCUUCUUACAUGGGAUUCCUCGUGUCGGGUAUCUCUCGAUUACUGGGCAGUGCAUCGCUGGCCUCUUGAUUGAAACGAUUCCUGAUGUAGGGA
......--.......((((........)))).((((..(((((((.(((..(((((((..((.(((((...))))).))...)))))))...))).)))))))..)))) ( -34.50)
>DroWil_CAF1 53805 95 + 1
-----U--CUAUA-------CUUACAUGGGAUUUCUUGUAUCGGGAAUCUCUCGAUUACUGGGCAGUGCAUCGCUGGCCUCUUGAUUGAAACGAUUUCUGAUAUAAGGA
-----(--((((.-------.....)))))..(((((((((((((((((..(((((((..((.(((((...))))).))...)))))))...))))))))))))))))) ( -35.30)
>DroAna_CAF1 36024 97 + 1
---CCC--UUUCA-------CUUACAUUGGAUUCCUGGUGUCGGGAAUCUCACGAUUACUGGGCAGGGAGUCGCUGGCCUCCUGGUUGAAGCGGUUUCUUAUGUAGGGA
---...--.....-------(((((((.(((((((((....)))))))))..............(((((..((((.(((....)))...))))..)))))))))))).. ( -32.70)
>DroPer_CAF1 41965 107 + 1
AUCUCU--CGAAAUCUCCUUCUUACAUGGGAUUCCUCGUGUCGGGUAUCUCUCGAUUACUGGGCAGUGCAUCGCUGGCCUCUUGAUUGAAACGAUUCCUAAUGUAGGGA
......--..........(((((((((((((....((((((((((.....))))))....((.(((((...))))).))...........)))).)))).))))))))) ( -30.20)
>consensus
____CU__CUAAA_______CUUACAUGGGAUUCCUGGUGUCGGGUAUCUCUCGAUUACUGGGCAGUGCAUCGCUGGCCUCCUGAUUGAAACGAUUCCUAAUGUAGGGA
....................(((((((((((.((...((((((((.....))))).))).((.(((((...))))).)).............)).)))).))))))).. (-22.17 = -22.20 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:26 2006