Locus 7629

Sequence ID 3R_DroMel_CAF1
Location 20,439,700 – 20,439,832
Length 132
Max. P 0.776265
window12316 window12317

overview

Window 6

Location 20,439,700 – 20,439,806
Length 106
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 74.39
Mean single sequence MFE -24.44
Consensus MFE -11.22
Energy contribution -13.42
Covariance contribution 2.20
Combinations/Pair 1.16
Mean z-score -1.81
Structure conservation index 0.46
SVM decision value 0.27
SVM RNA-class probability 0.661056
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20439700 106 - 27905053
AAUCGACGCAAAUGCGUUGGCUACACUGC--GACAAAA-UGCGAGCACUGCCUGCGUCCUGCGGUGUUUGCAUCUCAUAAAAAA--AAAAAACGG--GAGAAUAAUAAAA------UUU
...((((((....))))))((......))--.......-((((((((((((.........))))))))))))((((........--.........--)))).........------... ( -29.13)
>DroSec_CAF1 22090 95 - 1
AAUCGACGCAAAUGCGUUGGCUACACUGC--GACAAAA-UG-------------CGUCCUGCGGUGUUUGCAUCUCAUAAAAAAAUAAAAAACGG--GGGAAUAAUAAAA------UUU
...((((((....))))))((.(((((((--(((....-..-------------.)))..)))))))..)).((((...................--)))).........------... ( -23.01)
>DroSim_CAF1 21837 94 - 1
AAUCGACGCAAAUGCGUUGGCUACACUGC--GACAAAA-UG-------------CGUCCUGCGGUGUUUGCAUCUCAUAAAAAAA-AAAAAACGG--GGGAAUAAUAAAA------UUU
...((((((....))))))((.(((((((--(((....-..-------------.)))..)))))))..)).((((.........-.........--)))).........------... ( -23.07)
>DroEre_CAF1 21866 92 - 1
AAUCGACGCAAAUGCGUUGCCUACACUGA--GAUAAAAAUGCACGAGCUGCGUGCG-------UCGUUUGCAUCUCAUAAAA-------AAAGGG--GGGAAU---CAAA------UUU
...((((((....))))))(((....(((--(((.((((((((((.....))))))-------)..)))..)))))).....-------..))).--......---....------... ( -23.40)
>DroYak_CAF1 23106 112 - 1
AAUCGACGCAAAUGCGUUGCCUACACUGAGAGAUAAAACCACACGAGCUGCGUGCGU-GUGCAUCGUUUGCAUCUCAUAAAAAGA-A--AAAGGGUGGAGAAU---CAAAUCAAAUUUU
...((((((....)))))).......((((((((.((((((((((.((...)).)))-)))....))))..))))).........-.--....(((.....))---)...)))...... ( -23.60)
>consensus
AAUCGACGCAAAUGCGUUGGCUACACUGC__GACAAAA_UGC__G__CUGC_UGCGUCCUGCGGUGUUUGCAUCUCAUAAAAAAA_AAAAAACGG__GGGAAUAAUAAAA______UUU
...((((((....))))))((.(((((((..........((((((.....))))))....)))))))..)).((((.....................)))).................. (-11.22 = -13.42 +   2.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,439,730 – 20,439,832
Length 102
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 82.66
Mean single sequence MFE -31.00
Consensus MFE -21.16
Energy contribution -23.20
Covariance contribution 2.04
Combinations/Pair 1.09
Mean z-score -1.95
Structure conservation index 0.68
SVM decision value 0.54
SVM RNA-class probability 0.776265
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20439730 102 - 27905053
GUGUGACCAAGUGGACCGAUGCAUAAAAUCGACGCAAAUGCGUUGGCUACACUGC--GACAAAA-UGCGAGCACUGCCUGCGUCCUGCGGUGUUUGCAUCUCAUA
.(((((....((((.(((((((((.............))))))))))))).....--......(-((((((((((((.........))))))))))))).))))) ( -35.92)
>DroSec_CAF1 22122 89 - 1
GUGUGACCAAGUGGACCGAUGCAUAAAAUCGACGCAAAUGCGUUGGCUACACUGC--GACAAAA-UG-------------CGUCCUGCGGUGUUUGCAUCUCAUA
.(((((((....))...((((((.....(((((((....)))))))..(((((((--(((....-..-------------.)))..))))))).))))))))))) ( -30.80)
>DroSim_CAF1 21868 89 - 1
GUGUGACCAAGUGGACCGAUGCAUAAAAUCGACGCAAAUGCGUUGGCUACACUGC--GACAAAA-UG-------------CGUCCUGCGGUGUUUGCAUCUCAUA
.(((((((....))...((((((.....(((((((....)))))))..(((((((--(((....-..-------------.)))..))))))).))))))))))) ( -30.80)
>DroEre_CAF1 21888 96 - 1
GUGUGACCAAGUGGACCGAUGCAUAAAAUCGACGCAAAUGCGUUGCCUACACUGA--GAUAAAAAUGCACGAGCUGCGUGCG-------UCGUUUGCAUCUCAUA
(((((.((....))...............((((((....))))))..)))))(((--(((.((((((((((.....))))))-------)..)))..)))))).. ( -27.80)
>DroYak_CAF1 23140 104 - 1
GUGUGACCAAGUGGACCGAUGCAUAAAAUCGACGCAAAUGCGUUGCCUACACUGAGAGAUAAAACCACACGAGCUGCGUGCGU-GUGCAUCGUUUGCAUCUCAUA
.(((((....(..(((.((((((((....((((((....))))))....................(.((((.....)))).))-))))))))))..)...))))) ( -29.70)
>consensus
GUGUGACCAAGUGGACCGAUGCAUAAAAUCGACGCAAAUGCGUUGGCUACACUGC__GACAAAA_UGC__G__CUGC_UGCGUCCUGCGGUGUUUGCAUCUCAUA
.(((((((....))...((((((......((((((....))))))...(((((((..........((((((.....))))))....))))))).))))))))))) (-21.16 = -23.20 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:40 2006