Locus 2821

Sequence ID 3R_DroMel_CAF1
Location 7,553,928 – 7,554,027
Length 99
Max. P 0.708660
window4559

overview

Window 9

Location 7,553,928 – 7,554,027
Length 99
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 81.40
Mean single sequence MFE -38.90
Consensus MFE -26.56
Energy contribution -26.72
Covariance contribution 0.16
Combinations/Pair 1.16
Mean z-score -1.78
Structure conservation index 0.68
SVM decision value 0.37
SVM RNA-class probability 0.708660
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7553928 99 - 27905053
AGCC-CGGCCAGGACAGUCCUGGUUUCGGGUGGCCGGAGGAGGCAAUCGAGUGGCUUCUGGGCGGAUGCACUCGGAAAAUAUUGUAUAUAC-----------------AAGUCCUAA
.(((-((((((((.....))))))..))))).(((......)))....(((((.(.(((....))).))))))(((.....((((....))-----------------)).)))... ( -37.20)
>DroSec_CAF1 49010 99 - 1
AGCC-CGGCCAGGACAGUCCUGGUUUCGGGUGGCCGGAGGAGGCAAUCGAGUGGCUUCUGGGCGUAUACACUCGGAAAAUAUUGUAUAUAC-----------------UAGUCUUAA
.(((-((((((((.....))))))..)))))(.(((((((..((......))..))))))).)(((((((............)))))))..-----------------......... ( -36.10)
>DroSim_CAF1 49976 99 - 1
AGCC-CGGCCAGGACAGUCCUGGUUUCGGGUGGCCGGAGGAGGCAAUCGAGUGGCUUCUGGGCGGAUGCACUCGGAAAAUAUUGUAUAUAC-----------------UAGUCUUAA
.(((-((((((((.....))))))..))))).(((......)))..(((((((.(.(((....))).))))))))................-----------------......... ( -35.60)
>DroEre_CAF1 51235 116 - 1
AGCC-CGGCCAGGACCUUCCUGGUCUUGGGUGCACGGAGGAGGCAAUCGAGUGGCAUCUGGAUGGAUGCACUCAGAAAAUAUUGCGCAUACUGCAGACACUGCAUAAGUAGUCUUAA
.(((-((((((((.....)))))))..))))(((.(...(..(((((((((((.(((((....)))))))))).)).....)))).)...))))(((((((.....))).))))... ( -41.60)
>DroYak_CAF1 52334 117 - 1
AGCCCCAGCCAGGACCUUCCUGGUUUCGGGUGGACGGAGGAGGCCAUCGAGUGGCAUCUGGGUGGAUGCACUCGGAAAAUAUUGUACCUACUUUCGACCCUGCCUAAGUAGUCUUCA
.((((.(((((((.....)))))))..))))((.(((((((((((((...))))).((((((((....))))))))...........)).)))))).))((((....))))...... ( -44.00)
>consensus
AGCC_CGGCCAGGACAGUCCUGGUUUCGGGUGGCCGGAGGAGGCAAUCGAGUGGCUUCUGGGCGGAUGCACUCGGAAAAUAUUGUAUAUAC_________________UAGUCUUAA
.(((.((((((((.....)))))))((((...(((......)))..))))).))).((((((.(....).))))))......................................... (-26.56 = -26.72 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:27 2006