Locus 3812

Sequence ID 3L_DroMel_CAF1
Location 10,999,104 – 10,999,198
Length 94
Max. P 0.874366
window5939

overview

Window 9

Location 10,999,104 – 10,999,198
Length 94
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 79.47
Mean single sequence MFE -24.73
Consensus MFE -11.27
Energy contribution -11.85
Covariance contribution 0.58
Combinations/Pair 1.13
Mean z-score -2.77
Structure conservation index 0.46
SVM decision value 0.89
SVM RNA-class probability 0.874366
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10999104 94 - 23771897
---CAAACUAAUUAGUGUGGCCAGUAC---------GG-GGCAUUUUUCAAUAUGCCCCCCCCCCCCCCACCUCAAUUGGCACCUGGCCAUAAAUUCAACCGGCCUU
---............(((((((((...---------((-(((((........)))))))...........((......))...)))))))))............... ( -29.10)
>DroGri_CAF1 113413 91 - 1
---CAAACUAAUUAGUGUGGCCAACGCUGUAUUUUUGCACGCAUUUUUCACAUG-C-----------CUAGCGACGAUGGCA-UUAGCCAUAAAUUGAACAAACUAC
---.........((((.((..((((((((((....)))..((((.......)))-)-----------..))))...(((((.-...)))))...)))..)).)))). ( -20.00)
>DroSec_CAF1 131078 85 - 1
---CAAACUAAUUAGUGUGUCCAGUAC---------GG-GGCAUUUUUCAAUAGGCCC---------CCACCUCAAUUGGCACCUGGCCAUAAAUUCAACCGGCCUU
---..........((.(((.(((((..---------((-(((............))))---------).......))))))))))((((............)))).. ( -21.70)
>DroSim_CAF1 129787 88 - 1
UAACAAACUAAUUAGUGUGUCCAGUAC---------GG-GGCAUUUUUCAAUAGGCCC---------CCACCUCAAUUGGCACCUGGCCAUAAAUUCAACCGGCCUU
.............((.(((.(((((..---------((-(((............))))---------).......))))))))))((((............)))).. ( -21.70)
>DroEre_CAF1 133170 86 - 1
---CAAACUAAUUAGUGUGGCCAGUAC---------GG-GGCAUUUUUCAAUGGCCCC--------UCCACCUCAAUUGGCACCUGGCCAUAAAUUCAACCGGCCUU
---............(((((((((...---------((-(((...........)))))--------....((......))...)))))))))............... ( -25.90)
>DroYak_CAF1 135537 86 - 1
---CAAACUAAUUAGUGUGGCCAGUAU---------GGGGGCAUUUUUCAAUGGGCCC---------CCACCUCAAUUGGCACCUGGCCAUAAAUUCAACCGGCCUU
---............(((((((((..(---------((((((............))))---------)))((......))...)))))))))............... ( -30.00)
>consensus
___CAAACUAAUUAGUGUGGCCAGUAC_________GG_GGCAUUUUUCAAUAGGCCC_________CCACCUCAAUUGGCACCUGGCCAUAAAUUCAACCGGCCUU
...............(((((((((...............(((............)))..........(((.......)))...)))))))))............... (-11.27 = -11.85 +   0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:12 2006