Locus 8135

Sequence ID dm3.chr3L
Location 20,503,882 – 20,503,980
Length 98
Max. P 0.996034
window11191 window11192

overview

Window 1

Location 20,503,882 – 20,503,980
Length 98
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 93.62
Shannon entropy 0.12108
G+C content 0.44231
Mean single sequence MFE -26.77
Consensus MFE -22.75
Energy contribution -22.78
Covariance contribution 0.03
Combinations/Pair 1.04
Mean z-score -3.16
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.48
SVM RNA-class probability 0.991532
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20503882 98 + 24543557
AAUAUAUAUGACUAAUGUCGUGUGGUCGCCAAUCGCAAGAACCAUUGAUUCUUGGGCCCCCAAAUCGAAUACAUCUGAUACUAGCUGAACCACACGAC----
................(((((((((((((...((....))....((((((..(((....)))))))))...............)).).))))))))))---- ( -27.30, z-score =  -3.32, R)
>droSim1.chr3L 19853679 98 + 22553184
AAUAUAUAUGACUAAUGUCGUGUGGUCGCCAAUCGCAAGAACCAUUGAUUCUUGGGCCCCCAAAUCGAAUACAUCUGAUACUAGCUGAACCACACGAC----
................(((((((((((((...((....))....((((((..(((....)))))))))...............)).).))))))))))---- ( -27.30, z-score =  -3.32, R)
>droSec1.super_11 394144 98 + 2888827
AAUAUAUAUGACUAAUGUCGUGUGGUCGCCAAUCGCAAGAACCAUUGAUUCUUGGGCCCAAAAAUCGAAUACAUCUGAUACUAGCUGAACCACACGAC----
................(((((((((((((...((....))....((((((.(((....))).))))))...............)).).))))))))))---- ( -27.00, z-score =  -3.38, R)
>droYak2.chr3L 4144342 98 - 24197627
AAUAUAUAUGACUAAUGUCGUGUGGUCGCCAAUCGCAAGAACCAUUGAUUCUUGGGCCCCCAAAUCGAAUACAUCUGAUACUAGCUGAACCACACGAC----
................(((((((((((((...((....))....((((((..(((....)))))))))...............)).).))))))))))---- ( -27.30, z-score =  -3.32, R)
>droEre2.scaffold_4784 20195906 98 + 25762168
AAUAUAUAUGACUAAUGUCGUGUGGUCGCCAAUCGCAAGAACCAUUGAUUCUUGGGCCCCCAAAUCGAAUACAUCUGAUACUAGCUAAGCCACACGAC----
................((((((((((.((...((....))....((((((..(((....)))))))))...............))...))))))))))---- ( -27.00, z-score =  -3.13, R)
>droAna3.scaffold_13337 10859237 102 + 23293914
AAUAUAUAUGACUAAUGUCGUGUGGUAGCCACCAGCAAGAACAACUGAUUCUUGGGCCCCCAAACCGAGUACAACUGAUACAAGCCGAACCACACGACCACC
................((((((((((.((.....)).....((..((((((((((....))))...)))).))..))...........)))))))))).... ( -24.70, z-score =  -2.48, R)
>consensus
AAUAUAUAUGACUAAUGUCGUGUGGUCGCCAAUCGCAAGAACCAUUGAUUCUUGGGCCCCCAAAUCGAAUACAUCUGAUACUAGCUGAACCACACGAC____
................((((((((((.(((.....((((((.......)))))))))......((((........)))).........)))))))))).... (-22.75 = -22.78 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,503,882 – 20,503,980
Length 98
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 93.62
Shannon entropy 0.12108
G+C content 0.44231
Mean single sequence MFE -34.00
Consensus MFE -30.52
Energy contribution -30.80
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -3.29
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.88
SVM RNA-class probability 0.996034
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20503882 98 - 24543557
----GUCGUGUGGUUCAGCUAGUAUCAGAUGUAUUCGAUUUGGGGGCCCAAGAAUCAAUGGUUCUUGCGAUUGGCGACCACACGACAUUAGUCAUAUAUAUU
----(((((((((((..((((((.((((((.......))))))....((((((((.....))))))).))))))))))))))))))................ ( -34.10, z-score =  -3.47, R)
>droSim1.chr3L 19853679 98 - 22553184
----GUCGUGUGGUUCAGCUAGUAUCAGAUGUAUUCGAUUUGGGGGCCCAAGAAUCAAUGGUUCUUGCGAUUGGCGACCACACGACAUUAGUCAUAUAUAUU
----(((((((((((..((((((.((((((.......))))))....((((((((.....))))))).))))))))))))))))))................ ( -34.10, z-score =  -3.47, R)
>droSec1.super_11 394144 98 - 2888827
----GUCGUGUGGUUCAGCUAGUAUCAGAUGUAUUCGAUUUUUGGGCCCAAGAAUCAAUGGUUCUUGCGAUUGGCGACCACACGACAUUAGUCAUAUAUAUU
----(((((((((((..((((((...(((..((((.((((((((....))))))))))))..)))....)))))))))))))))))................ ( -36.70, z-score =  -4.91, R)
>droYak2.chr3L 4144342 98 + 24197627
----GUCGUGUGGUUCAGCUAGUAUCAGAUGUAUUCGAUUUGGGGGCCCAAGAAUCAAUGGUUCUUGCGAUUGGCGACCACACGACAUUAGUCAUAUAUAUU
----(((((((((((..((((((.((((((.......))))))....((((((((.....))))))).))))))))))))))))))................ ( -34.10, z-score =  -3.47, R)
>droEre2.scaffold_4784 20195906 98 - 25762168
----GUCGUGUGGCUUAGCUAGUAUCAGAUGUAUUCGAUUUGGGGGCCCAAGAAUCAAUGGUUCUUGCGAUUGGCGACCACACGACAUUAGUCAUAUAUAUU
----(((((((((....((((((.((((((.......))))))....((((((((.....))))))).)))))))..)))))))))................ ( -32.00, z-score =  -2.71, R)
>droAna3.scaffold_13337 10859237 102 - 23293914
GGUGGUCGUGUGGUUCGGCUUGUAUCAGUUGUACUCGGUUUGGGGGCCCAAGAAUCAGUUGUUCUUGCUGGUGGCUACCACACGACAUUAGUCAUAUAUAUU
....((((((((((..((((...((((((...(((...(((((....)))))....))).......))))))))))))))))))))................ ( -33.00, z-score =  -1.73, R)
>consensus
____GUCGUGUGGUUCAGCUAGUAUCAGAUGUAUUCGAUUUGGGGGCCCAAGAAUCAAUGGUUCUUGCGAUUGGCGACCACACGACAUUAGUCAUAUAUAUU
....((((((((((...((((((...(((..((((.(((((..(....)..)))))))))..)))....)))))).))))))))))................ (-30.52 = -30.80 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:40:05 2011