Locus 7186

Sequence ID dm3.chr3L
Location 12,791,064 – 12,791,154
Length 90
Max. P 0.998172
window9891 window9892

overview

Window 1

Location 12,791,064 – 12,791,154
Length 90
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 72.82
Shannon entropy 0.51800
G+C content 0.33399
Mean single sequence MFE -22.49
Consensus MFE -9.71
Energy contribution -10.10
Covariance contribution 0.39
Combinations/Pair 1.47
Mean z-score -3.32
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.28
SVM RNA-class probability 0.998172
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12791064 90 + 24543557
-ACGGCAAUUUUAUUGACACAAAACUGACAAAACCA-AAUGCGAAAAGGAUUA-ACAUUUCAAAUUUCGCAUUUGUUUUGCAGGCCAGCACAA
-..(((.......(((...)))..(((.((((((.(-(((((((((..((...-.....))...))))))))))))))))))))))....... ( -25.60, z-score =  -4.54, R)
>droSim1.chr3L 12178195 90 + 22553184
-AUGGGAAUUUAAUUGACACAAAACUGACAAAAUCA-AAUGCGAAAAGGAUUA-ACAUUUCCCAUUUCGCAUUUGCUUUGCAGUCCAGCACAA
-.(((........(((...))).((((.((((..((-(((((((((.(((...-.....)))..))))))))))).)))))))))))...... ( -22.90, z-score =  -3.18, R)
>droSec1.super_0 4975954 90 + 21120651
-AUGGGAAUUUAAUUGACACAAAACUGACAAAACCA-AAUGCGAAAAGGAUUA-ACAUUUCCCAUUUCGUAUUUGUUUUGCAGUCCAGCACAA
-.(((........(((...))).((((.((((((.(-(((((((((.(((...-.....)))..)))))))))))))))))))))))...... ( -23.20, z-score =  -3.29, R)
>droYak2.chr3L 12862554 90 + 24197627
-AUGGGAAUUUAAUUGACACAAAACUGGCAAAACCG-AAUGCGAAAAGGAUAA-ACAUUUUCCAUUUCGCAUUUGUUUUGGAAUGCACCAAAA
-.(((..((((........((....)).((((((.(-(((((((((.(((...-......))).))))))))))))))))))))...)))... ( -24.10, z-score =  -3.16, R)
>droEre2.scaffold_4784 12798694 90 + 25762168
-AUGGGAAUUUAAUUGACACAAAACUGGCGAAACAG-AAUGCGAAAAGGAUUA-ACAUUUUCUAUUUCGCAUUUGUUUUAGAAUCCACCACAA
-...(((.(((((..((((.....(((......)))-(((((((((((((...-.....)))).)))))))))))))))))).)))....... ( -21.60, z-score =  -3.48, R)
>droVir3.scaffold_13049 2505488 85 - 25233164
UCUGUUACUUUUAUUAACGAAAGUUUGGAAAAUUAACAAUUUAAUCAGAGUCACGUGUUAAUUACUAUUAAGCUGAUUGGAAACA--------
..(((((.((((...(((....)))...)))).))))).(((((((((......(((.....))).......)))))))))....-------- ( -17.52, z-score =  -2.27, R)
>consensus
_AUGGGAAUUUAAUUGACACAAAACUGACAAAACCA_AAUGCGAAAAGGAUUA_ACAUUUCCCAUUUCGCAUUUGUUUUGCAAUCCAGCACAA
............................((((((...(((((((((.((............)).))))))))).))))))............. ( -9.71 = -10.10 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,791,064 – 12,791,154
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 72.82
Shannon entropy 0.51800
G+C content 0.33399
Mean single sequence MFE -22.35
Consensus MFE -7.57
Energy contribution -8.27
Covariance contribution 0.70
Combinations/Pair 1.40
Mean z-score -2.82
Structure conservation index 0.34
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.64
SVM RNA-class probability 0.957633
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12791064 90 - 24543557
UUGUGCUGGCCUGCAAAACAAAUGCGAAAUUUGAAAUGU-UAAUCCUUUUCGCAUU-UGGUUUUGUCAGUUUUGUGUCAAUAAAAUUGCCGU-
.......((((((((((((((((((((((...((.....-...))..)))))))))-).)))))).)))((((((....))))))..)))..- ( -25.60, z-score =  -3.35, R)
>droSim1.chr3L 12178195 90 - 22553184
UUGUGCUGGACUGCAAAGCAAAUGCGAAAUGGGAAAUGU-UAAUCCUUUUCGCAUU-UGAUUUUGUCAGUUUUGUGUCAAUUAAAUUCCCAU-
((((((..(((((((((((((((((((((.((((.....-...)))))))))))))-)).))))).)))))..))).)))............- ( -30.70, z-score =  -4.72, R)
>droSec1.super_0 4975954 90 - 21120651
UUGUGCUGGACUGCAAAACAAAUACGAAAUGGGAAAUGU-UAAUCCUUUUCGCAUU-UGGUUUUGUCAGUUUUGUGUCAAUUAAAUUCCCAU-
((((((..(((((((((((((((.(((((.((((.....-...))))))))).)))-).)))))).)))))..))).)))............- ( -24.10, z-score =  -2.75, R)
>droYak2.chr3L 12862554 90 - 24197627
UUUUGGUGCAUUCCAAAACAAAUGCGAAAUGGAAAAUGU-UUAUCCUUUUCGCAUU-CGGUUUUGCCAGUUUUGUGUCAAUUAAAUUCCCAU-
..((((..((...((((((.(((((((((.(((......-...))).)))))))))-..)))))).......))..))))............- ( -23.10, z-score =  -2.79, R)
>droEre2.scaffold_4784 12798694 90 - 25762168
UUGUGGUGGAUUCUAAAACAAAUGCGAAAUAGAAAAUGU-UAAUCCUUUUCGCAUU-CUGUUUCGCCAGUUUUGUGUCAAUUAAAUUCCCAU-
..((((.(((((.....(((((.((((((((((..((((-.((.....)).)))))-)))))))))....)))))........)))))))))- ( -22.52, z-score =  -3.71, R)
>droVir3.scaffold_13049 2505488 85 + 25233164
--------UGUUUCCAAUCAGCUUAAUAGUAAUUAACACGUGACUCUGAUUAAAUUGUUAAUUUUCCAAACUUUCGUUAAUAAAAGUAACAGA
--------.......((((((.(((...((.....))...)))..))))))...((((((.((((...(((....)))...)))).)))))). (  -8.10, z-score =   0.40, R)
>consensus
UUGUGCUGGACUGCAAAACAAAUGCGAAAUGGGAAAUGU_UAAUCCUUUUCGCAUU_UGGUUUUGCCAGUUUUGUGUCAAUUAAAUUCCCAU_
.............((((((.(((((((((..................)))))))))...))))))............................ ( -7.57 =  -8.27 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:22:05 2011