Locus 3629

Sequence ID 3R_DroMel_CAF1
Location 9,796,228 – 9,796,348
Length 120
Max. P 0.949208
window5839

overview

Window 9

Location 9,796,228 – 9,796,348
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 95.89
Mean single sequence MFE -22.28
Consensus MFE -20.32
Energy contribution -20.85
Covariance contribution 0.53
Combinations/Pair 1.03
Mean z-score -1.55
Structure conservation index 0.91
SVM decision value 1.39
SVM RNA-class probability 0.949208
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9796228 120 + 27905053
CCAUUUUAGUUUGUCAUUAGCACCGGCUGAGAAUGUGGACGAUUUGAGUACCUCACCCAUUUCUUCCCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAAUUUAACCACUUU
....(((((((..((.(((((....)))))))((((((((((..((.((.....)).))..))...........(((....))).......))))))))..)))))))............ ( -23.30)
>DroVir_CAF1 5323 120 + 1
CCAUUUUAGUUUGUCAUUAGCACCUGCUGAGAAUGUGGACGAUUUGAGUACUUCACCCAUUUCUUCCCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAAUUUAACCACUUU
....(((((((..((.(((((....)))))))((((((((((..((.((.....)).))..))...........(((....))).......))))))))..)))))))............ ( -23.70)
>DroGri_CAF1 5943 120 + 1
CCAUUUUAGUUUGUCAUUAGCACCGGCUGAGAAUGUGGACGAUUUGAGUACCUCACCCAUCUCUUCCCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAAUUUAACAACUUU
....(((((((..((.(((((....)))))))(((((((((((.((((...))))...))).............(((....))).......))))))))..)))))))............ ( -23.10)
>DroWil_CAF1 7010 120 + 1
CCAUUUUAGUUUGUCAUUAGCACCGGCAGAGAAUGUGGACGAUUUGAGUACUUCACCCAUUUCUUCCCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAAUUUAACCACUUU
....(((((((((((.........))))))..((((((((((..((.((.....)).))..))...........(((....))).......))))))))....)))))............ ( -20.30)
>DroMoj_CAF1 5568 120 + 1
CCAUUUCAGUUUGUCAUUAGCACCCGCUGAGAAUGUGGAAGAUUUGAGCACUUCACCCAUUUCUUCUCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAAUUUAACCACUUU
.........((((((...(((....)))(((((.((((..((..........))..))))...)))))))))))......(((((..((((.....)))))))))............... ( -21.50)
>DroAna_CAF1 5694 120 + 1
CCAUUUCAGUUUGUCAUUAGCACCGGCUGAGAAUGUGGACGACUUGAGUACCUCACCCAUCUCCUCCCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAACUUAACCACUUU
...(((((((..(((....).))..)))))))((((((((....((((...))))...................(((....))).......))))))))..................... ( -21.80)
>consensus
CCAUUUUAGUUUGUCAUUAGCACCGGCUGAGAAUGUGGACGAUUUGAGUACCUCACCCAUUUCUUCCCGACAAAAACUAAAGUUAUUUAUGGUCCACAUAUAACUAAAUUUAACCACUUU
.....((((((((((.(((((....)))))....(.(((.((..((.((.....)).))..)).))))))))..))))))(((((..((((.....)))))))))............... (-20.32 = -20.85 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:06 2006