Locus 7905

Sequence ID 3L_DroMel_CAF1
Location 21,048,436 – 21,048,556
Length 120
Max. P 0.920845
window12881 window12882

overview

Window 1

Location 21,048,436 – 21,048,556
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 86.57
Mean single sequence MFE -22.05
Consensus MFE -16.61
Energy contribution -16.92
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.60
Structure conservation index 0.75
SVM decision value 0.25
SVM RNA-class probability 0.651004
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21048436 120 + 23771897
UUCCAAUUAGUGUGGAAAAUAAAGUGGAAAAGUGUUCAAUUGAUUGGGCGUUUGGGCGAGCUUGAAAAGUCAAAUCAAACUCAGGUGCGACUGAGAAUGGGUGAGAAAUAUUAAACGAAG
.((((((((((...(((....(..(....)..).))).))))))))))(((((((..((..((((....)))).))...(((((......)))))...............)))))))... ( -24.90)
>DroSec_CAF1 103624 102 + 1
UUGCAAUUAGUGUGGAAAAUAGAGUGGAAAAGUGUCCAAUUGAUUGG------------------AAAAUCAAAUCAAACUCAGGUGCGACUGAGAAUGGGUGAGAAAUAUUAAACGAAG
......(((((((........((.((((......)))).((((((..------------------..)))))).))...(((((......)))))............)))))))...... ( -19.20)
>DroSim_CAF1 9875 102 + 1
UUGCAAUUAGUGUGGAAAAUAGAGUGGAAAAGUGUCCAAUUGAUUGG------------------AAAAUCAAAUCAAACUCAGGUGCGACUGAGAAUGGGUGAGAAAUAUUAAACGAAG
......(((((((........((.((((......)))).((((((..------------------..)))))).))...(((((......)))))............)))))))...... ( -19.20)
>DroEre_CAF1 25591 119 + 1
UUCCAAUUAGUGUGGAAAAUAAAGUGGAAAAGUGUCCAAUUGAUUGGGCAUUUGGGCGAACUGG-AAAAUCAAAUCAAACUCAGGUGGGACUGAGAAUGGGUGAGAGAUAUUAAACGAAG
(((((.......))))).....(((.(..((((((((((....))))))))))...)..)))..-....(((..(((..(((((......)))))..))).)))................ ( -24.90)
>consensus
UUCCAAUUAGUGUGGAAAAUAAAGUGGAAAAGUGUCCAAUUGAUUGG__________________AAAAUCAAAUCAAACUCAGGUGCGACUGAGAAUGGGUGAGAAAUAUUAAACGAAG
..(((((((((.((((..................)))))))))))))......................(((..(((..(((((......)))))..))).)))................ (-16.61 = -16.92 +   0.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,048,436 – 21,048,556
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.57
Mean single sequence MFE -15.77
Consensus MFE -11.99
Energy contribution -12.05
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -2.25
Structure conservation index 0.76
SVM decision value 1.14
SVM RNA-class probability 0.920845
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21048436 120 - 23771897
CUUCGUUUAAUAUUUCUCACCCAUUCUCAGUCGCACCUGAGUUUGAUUUGACUUUUCAAGCUCGCCCAAACGCCCAAUCAAUUGAACACUUUUCCACUUUAUUUUCCACACUAAUUGGAA
....(((((((...........................((((((((.........))))))))((......)).......)))))))................(((((.......))))) ( -17.40)
>DroSec_CAF1 103624 102 - 1
CUUCGUUUAAUAUUUCUCACCCAUUCUCAGUCGCACCUGAGUUUGAUUUGAUUUU------------------CCAAUCAAUUGGACACUUUUCCACUCUAUUUUCCACACUAAUUGCAA
....(((((((..........((..(((((......)))))..))...(((((..------------------..))))))))))))................................. ( -14.20)
>DroSim_CAF1 9875 102 - 1
CUUCGUUUAAUAUUUCUCACCCAUUCUCAGUCGCACCUGAGUUUGAUUUGAUUUU------------------CCAAUCAAUUGGACACUUUUCCACUCUAUUUUCCACACUAAUUGCAA
....(((((((..........((..(((((......)))))..))...(((((..------------------..))))))))))))................................. ( -14.20)
>DroEre_CAF1 25591 119 - 1
CUUCGUUUAAUAUCUCUCACCCAUUCUCAGUCCCACCUGAGUUUGAUUUGAUUUU-CCAGUUCGCCCAAAUGCCCAAUCAAUUGGACACUUUUCCACUUUAUUUUCCACACUAAUUGGAA
................(((..((..(((((......)))))..))...)))..((-((((((.((......)).........((((......))))................)))))))) ( -17.30)
>consensus
CUUCGUUUAAUAUUUCUCACCCAUUCUCAGUCGCACCUGAGUUUGAUUUGAUUUU__________________CCAAUCAAUUGGACACUUUUCCACUCUAUUUUCCACACUAAUUGCAA
....(((((((..........((..(((((......)))))..))...(((((......................))))))))))))................................. (-11.99 = -12.05 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:19 2006