Locus 7774

Sequence ID 3R_DroMel_CAF1
Location 20,817,826 – 20,817,933
Length 107
Max. P 0.677661
window12538

overview

Window 8

Location 20,817,826 – 20,817,933
Length 107
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.33
Mean single sequence MFE -26.07
Consensus MFE -15.04
Energy contribution -16.18
Covariance contribution 1.14
Combinations/Pair 1.08
Mean z-score -1.96
Structure conservation index 0.58
SVM decision value 0.30
SVM RNA-class probability 0.677661
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20817826 107 + 27905053
GCUGC------GCUGCUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCAGUGCAUUCGUU--CGGCGCUGAAACAAUAAAAGUCAGCAAAUUGAGUCGCGAAAU-GAAGCAG
((...------...))....((((((((.(((((................((...((....)).--..))(((((...........)))))..........))))).)-))))))) ( -28.00)
>DroVir_CAF1 17084 90 + 1
GCUGC------G--AUUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCA-----------------GAGUCAACAAUAA-AGUCAGCAAAUUGAGUCGCACAAAGGUAGCAG
(((((------(--((((((.((((....(((((.(((((.....))))))))-----------------))(....).....-....))))..)))))))))((....))))).. ( -19.30)
>DroPse_CAF1 28510 113 + 1
GCUGCAGUGCUGCUGCUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCAGUGCAUUCGCU--CGGCGCUGAAACAAUAAAAGCCAGCAAAUUGAGUCGCGAAAU-GAAACAG
((.(((((((....))...)))))((((((((((.(((((.....))))).((((((.......--..))))))...............))))))))))..)).....-....... ( -28.50)
>DroMoj_CAF1 28162 93 + 1
GCUGC------G--AUUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCU--------------GGCGAGCAAGCAAUAA-AGUCAGCAAAUUGAGUCGCAAAAAGGUAGCAA
(((((------.--.(((...(((((((((((((.(((((.....)))))(((--------------........))).....-.....))))))))))..))).))).))))).. ( -23.60)
>DroAna_CAF1 28006 113 + 1
CCUGCAGU-CGGGUGCUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCAGUGCAUUCGUUCUCGGCGCUGAAACAAUAAAAGUCAGCAAAUUGAGUCGCGAAAU-GAAGCA-
...(((((-..(....)..)))))((((((((((.(((((.....))))).((((((...((....))))))))...............))))))))))..((.....-...)).- ( -28.50)
>DroPer_CAF1 27830 113 + 1
GCUGCAGUGCUGCUGCUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCAGUGCAUUCGCU--CGGCGCUGAAACAAUAAAAGCCAGCAAAUUGAGUCGCGAAAU-GAAACAG
((.(((((((....))...)))))((((((((((.(((((.....))))).((((((.......--..))))))...............))))))))))..)).....-....... ( -28.50)
>consensus
GCUGC______GCUGCUUAACUGCUUCAAUUUGCAUAAAUAAAUAAUUUAGCAGUGCAUUCG_U__CGGCGCUGAAACAAUAAAAGUCAGCAAAUUGAGUCGCGAAAU_GAAGCAG
.....................(((((((((((((.(((((.....))))).((((((...........))))))...............))))))))))..)))............ (-15.04 = -16.18 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:22 2006