Locus 7307

Sequence ID dm3.chr3L
Location 13,762,220 – 13,762,460
Length 240
Max. P 0.866127
window10056 window10057

overview

Window 6

Location 13,762,220 – 13,762,340
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 98.00
Shannon entropy 0.03610
G+C content 0.44833
Mean single sequence MFE -31.96
Consensus MFE -30.64
Energy contribution -30.32
Covariance contribution -0.32
Combinations/Pair 1.06
Mean z-score -1.31
Structure conservation index 0.96
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.43
SVM RNA-class probability 0.693896
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13762220 120 - 24543557
AAAGAAAACUGAGGCAUGAACCUGACUCAAGUGAAAGGCCGCUUGGGGCUCUUAGGUACAGCAAAACACAAGUAAGACCGCUGAUGUUUAGCGGAUUAACAAUGAGCCACUGGGUGAAAA
.......(((.((((.((.((((((((((((((......))))))))....)))))).)))).........((.((.(((((((...))))))).)).)).........)).)))..... ( -32.60, z-score =  -1.20, R)
>droSim1.chr3L 13147815 120 - 22553184
AAAGAAAACUGAGGCAUGAACCUGACUCAAGUGAAAGGCCGCUUGGGGCUCUUAGGUACAGCAAAACACAAGUAAGACCGCUGAUGUUUAGUGGAUUAACAAUGAGACACUGGGUGAAAA
.......(((.((((.((.((((((((((((((......))))))))....)))))).)))).........((.((.(((((((...))))))).)).)).........)).)))..... ( -30.70, z-score =  -1.15, R)
>droSec1.super_0 5923768 120 - 21120651
AAAGAAAACUGAGGCAUGAACCUGACUCAAGUGAAAGGCCGCUUGGGGCUCUUAGGUACAGCAAAACACAAGUAAGACUGCUGAUGUUUAGUGGAUUAACAAUGAGACACUGGGUGAAAA
.......(((...((.((.((((((((((((((......))))))))....)))))).)))).(((((..((((....))))..)))))((((..(((....)))..)))).)))..... ( -29.80, z-score =  -0.96, R)
>droYak2.chr3L 13860114 120 - 24197627
AAAGAAAACUGAGGCAUGAACCUGACUCAAGUGAAAGGCCGCUUGGGGCUCUUAGGUACAGCCAAACACAAGUAAGACCGCUGAUGUUUAGUGGAUUAACAAGGAGACACUGGGUGAAAA
............(((.((.((((((((((((((......))))))))....)))))).)))))...(((.(((....(((((((...)))))))........(....))))..))).... ( -36.00, z-score =  -2.15, R)
>droEre2.scaffold_4784 13768519 120 - 25762168
AAAGAAAACUGAGGCAUGAACCUGACUCAAGUGAAAGGCCGCUUGGGGCUCUUAGGUACAGCAAAACACAAGUAAGACCGCUGAUGUUUAGUGGAUUAACAAUGAGACACUGGGUGAAAG
.......(((.((((.((.((((((((((((((......))))))))....)))))).)))).........((.((.(((((((...))))))).)).)).........)).)))..... ( -30.70, z-score =  -1.10, R)
>consensus
AAAGAAAACUGAGGCAUGAACCUGACUCAAGUGAAAGGCCGCUUGGGGCUCUUAGGUACAGCAAAACACAAGUAAGACCGCUGAUGUUUAGUGGAUUAACAAUGAGACACUGGGUGAAAA
.......(((.((((.((.((((((((((((((......))))))))....)))))).)))).........((.((.(((((((...))))))).)).)).........)).)))..... (-30.64 = -30.32 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 13,762,340 – 13,762,460
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.99
Shannon entropy 0.03423
G+C content 0.41108
Mean single sequence MFE -26.78
Consensus MFE -25.34
Energy contribution -25.34
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.98
SVM RNA-class probability 0.866127
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13762340 120 + 24543557
CGCAGUCAACUAAAUUGCUCCCAGUUAAAAAGCACUUAAGAGGGGUACUUACUCUAGUAUUCCACUUUACGCUAAAAAAAAAGACAUUUCAUCGUCGGCAGGCACGUUUAACAGCUUGUC
.(((((.......)))))............(((....(((.((((((((......)))))))).)))...))).........(((........)))(((((((..........))))))) ( -26.80, z-score =  -1.85, R)
>droSim1.chr3L 13147935 119 + 22553184
UGCAGUCAACUAAAUUGCUCCCAGUUAAAAAGCACUUAAGAGGGGUACUUACUCUAGUAUUCCACUUUACGCUAAAAAAAA-GACAUUUCAUCGUCGGCAGGCACGUUUAACAGCUUGUC
.(((((.......)))))............(((....(((.((((((((......)))))))).)))...)))........-(((........)))(((((((..........))))))) ( -26.50, z-score =  -1.62, R)
>droSec1.super_0 5923888 119 + 21120651
CGCAGUCAACUAAAUUGCUCCCAGUUAAAAAGCACUUAAGAGGGGUACUUACUCUAGUAUUCCACUUUACGCUAAAAAAAA-GACAUUUCAUCGUCGGCAGGCACGUUUAACAGCUUGUC
.(((((.......)))))............(((....(((.((((((((......)))))))).)))...)))........-(((........)))(((((((..........))))))) ( -26.80, z-score =  -1.90, R)
>droYak2.chr3L 13860234 119 + 24197627
CUCAGUCGACUAAAUUGCUCCCAGUUAAAAAGCACUUAAGAGGGGUACUUACUCUAGUAUUCCACUUUACGCUAAAAAAAA-GACAUUUCAUCGUCGGCAGGCACGUUUAACAGCUUGUC
....((((((..(((((....)))))....(((....(((.((((((((......)))))))).)))...)))........-...........)))))).((((.((......)).)))) ( -26.90, z-score =  -1.79, R)
>droEre2.scaffold_4784 13768639 119 + 25762168
CUCAGUCGGCUAAAUUGCUCCCAGUUAAAAAGCACUUAAGAGGGGUACUUACUCUAGUAUUCCACUUUACGCUAAAAAAAA-GACAUUUCAUCGUCGGCAGGCACGUUUAACAGCUUGUC
....((((((......)))...........(((....(((.((((((((......)))))))).)))...)))........-)))...........(((((((..........))))))) ( -26.90, z-score =  -1.50, R)
>consensus
CGCAGUCAACUAAAUUGCUCCCAGUUAAAAAGCACUUAAGAGGGGUACUUACUCUAGUAUUCCACUUUACGCUAAAAAAAA_GACAUUUCAUCGUCGGCAGGCACGUUUAACAGCUUGUC
....(((.....(((((....)))))....(((....(((.((((((((......)))))))).)))...))).........)))...........(((((((..........))))))) (-25.34 = -25.34 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:24:23 2011