Locus 8130

Sequence ID 3L_DroMel_CAF1
Location 21,415,571 – 21,415,667
Length 96
Max. P 0.999740
window13284 window13285

overview

Window 4

Location 21,415,571 – 21,415,667
Length 96
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 70.12
Mean single sequence MFE -32.35
Consensus MFE -20.69
Energy contribution -19.75
Covariance contribution -0.94
Combinations/Pair 1.44
Mean z-score -2.57
Structure conservation index 0.64
SVM decision value 3.98
SVM RNA-class probability 0.999740
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21415571 96 + 23771897
UAGGCUGCGUUCAAUCGCAAAUGUAUGUGGAUGUACAUACAGACAUAUAUAUAUAUAUAUCUGUCCUUUUGGCCAGGACCGGCAAUCGGGUCCCUG---
..(((((((......)))...((((((((....))))))))((((.(((((....))))).)))).....)))).(((((.(....).)))))...--- ( -31.00)
>DroSec_CAF1 6998 92 + 1
UAGGCUGCGUUCAAUCGCAAAUGUAUGUGGAUGUACAUACAGACAUAUACGAGUGUA----UGUCCUUUUGGCCAGGACCGGCAACCGGGUCCCUG---
..(((((((......)))...((((((((....))))))))((((((((....))))----)))).....)))).((((((....)..)))))...--- ( -34.10)
>DroSim_CAF1 7215 92 + 1
UAGGCUGCGUUCAAUCGCAAAUGUAUGUGGAUGUACAUACAGACAUAUACGAGUGUA----UGUCCUUUUGGCCAGGACCGGCAACCGGGUCCCUG---
..(((((((......)))...((((((((....))))))))((((((((....))))----)))).....)))).((((((....)..)))))...--- ( -34.10)
>DroAna_CAF1 7721 86 + 1
CAGGCAGUG-------GCA-GUGGCUCUGGCUCUGGCUCUAGAU----AUGACUGUGU-CCUGUCUCUAUCGCCAGGAUUCAGAUUCAGGCUUCUGUAG
...((((.(-------((.-.((..(((((.((((((..((((.----..(((.....-...)))))))..))))))..)))))..)).))).)))).. ( -30.20)
>consensus
UAGGCUGCGUUCAAUCGCAAAUGUAUGUGGAUGUACAUACAGACAUAUACGAGUGUA____UGUCCUUUUGGCCAGGACCGGCAACCGGGUCCCUG___
..(((((((......)))...((((((((....))))))))((((..(((....)))....)))).....)))).(((((........)))))...... (-20.69 = -19.75 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 21,415,571 – 21,415,667
Length 96
Sequences 4
Columns 99
Reading direction reverse
Mean pairwise identity 70.12
Mean single sequence MFE -28.35
Consensus MFE -13.85
Energy contribution -15.97
Covariance contribution 2.12
Combinations/Pair 1.19
Mean z-score -2.31
Structure conservation index 0.49
SVM decision value 1.69
SVM RNA-class probability 0.972123
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21415571 96 - 23771897
---CAGGGACCCGAUUGCCGGUCCUGGCCAAAAGGACAGAUAUAUAUAUAUAUAUGUCUGUAUGUACAUCCACAUACAUUUGCGAUUGAACGCAGCCUA
---..((((((........))))))(((.....(((((.(((((....))))).)))))((((((......))))))...((((......))))))).. ( -29.70)
>DroSec_CAF1 6998 92 - 1
---CAGGGACCCGGUUGCCGGUCCUGGCCAAAAGGACA----UACACUCGUAUAUGUCUGUAUGUACAUCCACAUACAUUUGCGAUUGAACGCAGCCUA
---..((((((.((...))))))))(((.....(((((----((........)))))))((((((......))))))...((((......))))))).. ( -29.70)
>DroSim_CAF1 7215 92 - 1
---CAGGGACCCGGUUGCCGGUCCUGGCCAAAAGGACA----UACACUCGUAUAUGUCUGUAUGUACAUCCACAUACAUUUGCGAUUGAACGCAGCCUA
---..((((((.((...))))))))(((.....(((((----((........)))))))((((((......))))))...((((......))))))).. ( -29.70)
>DroAna_CAF1 7721 86 - 1
CUACAGAAGCCUGAAUCUGAAUCCUGGCGAUAGAGACAGG-ACACAGUCAU----AUCUAGAGCCAGAGCCAGAGCCAC-UGC-------CACUGCCUG
...(((..((.((..((((..((.((((..((((.....(-((...)))..----.))))..))))))..))))..)).-.))-------..))).... ( -24.30)
>consensus
___CAGGGACCCGAUUGCCGGUCCUGGCCAAAAGGACA____UACACUCAUAUAUGUCUGUAUGUACAUCCACAUACAUUUGCGAUUGAACGCAGCCUA
.....((((((........))))))(((.....(((((....(((....)))..)))))((((((......))))))....(((......))).))).. (-13.85 = -15.97 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:02 2006