Locus 8159

Sequence ID 3R_DroMel_CAF1
Location 21,933,099 – 21,933,271
Length 172
Max. P 0.994868
window13119 window13120

overview

Window 9

Location 21,933,099 – 21,933,207
Length 108
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 88.96
Mean single sequence MFE -22.98
Consensus MFE -18.88
Energy contribution -18.68
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -2.60
Structure conservation index 0.82
SVM decision value 2.52
SVM RNA-class probability 0.994868
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21933099 108 + 27905053
AAUCUCCCGGCAUUAGCAUCAGCAU-UUGUGUGCCACACGUGCGGUGCUAAAUAAUAAUACAAAGCCAAAAAAAAAAAAAAAAACACAAAAUUGCACUUGACAGCCGAC
.......((((.((((((((.((((-.((((...)))).))))))))))))...................................(((........)))...)))).. ( -25.10)
>DroSec_CAF1 47673 107 + 1
AAUCUCCCGGCAUUAGCAUCAGCAU-UUGUGUGCCACACGUGCGGUGCUAAAUAAUAAUACAAAGCCAAAAAAAAAA-CACACACACAAAAUUGCACUUGACAGCCGAC
.......((((.((((((((.((((-.((((...)))).))))))))))))..........................-........(((........)))...)))).. ( -25.10)
>DroSim_CAF1 57089 105 + 1
AAUCUCCCGGCAUUAGCAUCAGCAU-UUGUGUGCCACACGUGCGGUGCUAAAUAAUAAUACAAAGCCAAAAAAAAAA-CAC--ACACAAAAUUGCACUUGACAGCCGAC
.......((((.((((((((.((((-.((((...)))).))))))))))))..........................-...--...(((........)))...)))).. ( -25.10)
>DroEre_CAF1 49361 100 + 1
AAUCUCCCGGCAUUAUCAUUUGCUUUUUGUGUGCCACACGUGCGGUGCUAAAUAAUAAUACAA---CAAAAAAAAAA-GA-----AGAAAAUUGCAUUUGACAGCCGAC
.......((((....(((..(((((((((((..((.(....).))..)..............)---)))))).....-..-----........)))..)))..)))).. ( -17.29)
>DroYak_CAF1 49075 99 + 1
AAUCUCCCGGCAUUAGCAUUGGCUUUUUGUGUGCCACACGUGCGAUGCUAAAUAAUAAUACAA----AAAAAAAGAA-GA-----UGAAAAUUGCACUUGACAGCCGAC
.......((((.(((((((((.(....((((.....)))).))))))))))............----.....(((..-((-----(....)))...)))....)))).. ( -22.30)
>consensus
AAUCUCCCGGCAUUAGCAUCAGCAU_UUGUGUGCCACACGUGCGGUGCUAAAUAAUAAUACAAAGCCAAAAAAAAAA_CA___ACACAAAAUUGCACUUGACAGCCGAC
.......((((.((((((((.((....((((.....)))).)))))))))).........................................(((....).)))))).. (-18.88 = -18.68 +  -0.20)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,933,167 – 21,933,271
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 87.20
Mean single sequence MFE -27.90
Consensus MFE -20.55
Energy contribution -22.15
Covariance contribution 1.60
Combinations/Pair 1.08
Mean z-score -1.58
Structure conservation index 0.74
SVM decision value 0.01
SVM RNA-class probability 0.537942
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21933167 104 - 27905053
AAAAAAAAUACAGAGAACAGGAGGACAACCUCUCUAGUUGGCAGGAGAGCUUUCAGCAUCGGAAGUCGGCUGUCAAGUGCAAUUUUGUGUUUUUUUUUUUUUUU
(((((((((((((((....(((((....))))).((.(((((((..((.(((((......)))))))..))))))).))...)))))))))))))))....... ( -31.80)
>DroSec_CAF1 47741 98 - 1
-----AAAUACAGAGAACAGGAGGACAGCCUCUCUAGUUGGCAGGAGAGCUUUCAGCAUCGGAAGUCGGCUGUCAAGUGCAAUUUUGUGUGUGUG-UUUUUUUU
-----(((((((.(..((((((.((((((((((((.(....).)))))((((((......)))))).)))))))........)))))).).))))-)))..... ( -30.60)
>DroSim_CAF1 57157 96 - 1
-----AAAUACAGAGAACAGGAGGACAGCCUCUCUAGUUGGCAGGAGAGCUUUCAGCAUCGGAAGUCGGCUGUCAAGUGCAAUUUUGUGU--GUG-UUUUUUUU
-----..(((((.((((..(.(.((((((((((((.(....).)))))((((((......)))))).)))))))...).)..)))).)))--)).-........ ( -28.90)
>DroEre_CAF1 49427 95 - 1
A---CCAACACGAUGAACAGGAGGACAGCCACUCUAGUUGGCAGGAGAGCUUUCAGCAUCGGAAGUCGGCUGUCAAAUGCAAUUUUCU-----UC-UUUUUUUU
.---..........(((.((((((((((((.((((.(....).)))).((((((......)))))).)))))))(((......)))))-----))-).)))... ( -24.10)
>DroYak_CAF1 49140 96 - 1
AA--AAAACACGGAGAACAGGAGGACAGCCACUCUAGUUGGCAGGAGAGCUUUCAGCAUCGGAUGUCGGCUGUCAAGUGCAAUUUUCA-----UC-UUCUUUUU
..--.......(((((....(((((..((.(((.(((((((((...((((.....)).))...)))))))))...)))))..))))).-----))-)))..... ( -24.10)
>consensus
A____AAAUACAGAGAACAGGAGGACAGCCUCUCUAGUUGGCAGGAGAGCUUUCAGCAUCGGAAGUCGGCUGUCAAGUGCAAUUUUGUGU___UC_UUUUUUUU
.......((((((((........(((((((.((((.(....).)))).((((((......)))))).)))))))........)))))))).............. (-20.55 = -22.15 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:55 2006