Locus 5608

Sequence ID 3R_DroMel_CAF1
Location 14,792,620 – 14,792,714
Length 94
Max. P 0.967301
window9137

overview

Window 7

Location 14,792,620 – 14,792,714
Length 94
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 71.50
Mean single sequence MFE -31.40
Consensus MFE -14.60
Energy contribution -15.85
Covariance contribution 1.25
Combinations/Pair 1.42
Mean z-score -2.51
Structure conservation index 0.46
SVM decision value 1.61
SVM RNA-class probability 0.967301
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14792620 94 + 27905053
---------------------GUGUGCGGGGGCGUGAGUUGGGCGUGUAUGAGUGCCACACAAAUCCGCUUUCAUUUUAAUGAGCAAACUU-UCGC-UCGUGCGCCAUUUAU-UUGCU
---------------------(.(((((.(((((.((((((((..(((.((.....)).)))..)))((((..........)))).)))))-.)))-)).))))))......-..... ( -30.50)
>DroPse_CAF1 48563 114 + 1
UUAUCCUAGUGUUUACGUUUAGUGUAUCUGUGUGUG---UGUGUGUUUGUGUUUGCCACACAAAUACGCUCUCAUUUUAAUGAGCAAACUU-UUACAUCGAGCGUCGUUUAUUUUGCU
..............(((((..(((((...((.((((---.((((((((((((.....)))))))))))).)((((....))))))).))..-.)))))..)))))............. ( -30.30)
>DroSim_CAF1 54828 94 + 1
---------------------GUGUGCGGGGGCGUGAGGUGGGCGUGUAUGAGUGCCACACAAAUCCGCUUUCAUUUUAAUGAGCAAACUU-UUGC-UCGUGCGCCAUUUAU-UUGCU
---------------------(.(((((..((((.((.(((((((........)))).)))...))))))..)......((((((((....-))))-)))))))))......-..... ( -35.30)
>DroAna_CAF1 52880 94 + 1
---------------------GUGUGCGAGCUUGUAAA-UGCGUCCAUGUGUGUGUCAUGCAAAUCCGUUCUCAUUUUAAUGAGCAAACUUUUUGC-UCGGGCGCCAUUUAU-UUGCU
---------------------.......(((..(((((-(((((((.((((((...))))))...................((((((.....))))-))))))).)))))))-..))) ( -29.50)
>consensus
_____________________GUGUGCGGGGGCGUGAG_UGGGCGUGUAUGAGUGCCACACAAAUCCGCUCUCAUUUUAAUGAGCAAACUU_UUGC_UCGUGCGCCAUUUAU_UUGCU
.....................((((((((....((((...((((.((((((.....)))))).))))((((..........)))).......)))).))))))))............. (-14.60 = -15.85 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:15 2006