Locus 6176

Sequence ID 3L_DroMel_CAF1
Location 16,358,699 – 16,358,819
Length 120
Max. P 0.525425
window9912

overview

Window 2

Location 16,358,699 – 16,358,819
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.81
Mean single sequence MFE -27.80
Consensus MFE -20.58
Energy contribution -22.45
Covariance contribution 1.87
Combinations/Pair 1.06
Mean z-score -1.77
Structure conservation index 0.74
SVM decision value -0.02
SVM RNA-class probability 0.525425
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16358699 120 - 23771897
AGCGAGAGAUGUGAUUUUUGCCAUUAUUCACAUGCAAAUUGUGGCACACAGCAAAAUUGCAUUCCAAGGUCCUUUCAUAAUUUUUUAGAUUUUUUCGAAGAAUCUAAUUGUUGCUCGCUG
((((((.((((..(((((((((((.(((........))).))))))......)))))..))))..............((((...(((((((((.....)))))))))..)))))))))). ( -29.80)
>DroSec_CAF1 41082 116 - 1
AGCGAGAGCUGCGAUUUUUGCCAUUAUUCACAUGCAAAUUGUGGCACACAGCAAAAUUGCAUUCCAAGGUCCUUUCAUAAUU-UUUAGAUUUUUUCGAAGAAUCUAAUU---GCUCACUG
.....(((((((((((((((((((.(((........))).))))))......))))))))).....................-.(((((((((.....)))))))))..---)))).... ( -26.00)
>DroSim_CAF1 44786 116 - 1
AGCGAGAGCUGUGAUUUUUGCCAUUAUUCACAUGCAAAUUGUGGCACACAGCAAAAUUGCAUUCCAAGGUCCUUUCAUAAUU-UUUAGAUUUUUUCGAAGAAUCUAAUU---GCUCGCUG
((((((.((((((.....((((((.(((........))).))))))))))))..............................-.(((((((((.....)))))))))..---.)))))). ( -31.40)
>DroEre_CAF1 41110 112 - 1
AACGGGAGAUGUGAUUUUUGCCAUUAUUCACAUGCAAAUUGCGGCACAGAGCA--AUUGCAUU-CAAGGUCCUUUCAUAAUU--UCAGAUUUUUUCGAAGAAUCUAAUU---GCUCGGCU
........((((((.............))))))((.....))(((...(((((--((((.(((-(..((.....)).....(--((.((.....))))))))).)))))---)))).))) ( -24.02)
>consensus
AGCGAGAGAUGUGAUUUUUGCCAUUAUUCACAUGCAAAUUGUGGCACACAGCAAAAUUGCAUUCCAAGGUCCUUUCAUAAUU_UUUAGAUUUUUUCGAAGAAUCUAAUU___GCUCGCUG
((((((.(((((((((((((((((.(((........))).))))))......))))))))))).....................(((((((((.....)))))))))......)))))). (-20.58 = -22.45 +   1.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:54 2006