Locus 7942

Sequence ID dm3.chr3L
Location 18,813,810 – 18,813,910
Length 100
Max. P 0.944832
window10935 window10936

overview

Window 5

Location 18,813,810 – 18,813,910
Length 100
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 69.42
Shannon entropy 0.58011
G+C content 0.43452
Mean single sequence MFE -27.47
Consensus MFE -14.72
Energy contribution -16.42
Covariance contribution 1.70
Combinations/Pair 1.32
Mean z-score -1.39
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.40
SVM RNA-class probability 0.935420
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18813810 100 + 24543557
UGGGUUUAAUGGGCUAACAUUUCGCGUCCAACAGCACGCUGAGUGCUGUUCGGCGAGCAGCUGAUUUUGCAGUUUUCGGUAUUUUCAGUAUU-AGUUGGUA-------
............((((((......((((.((((((((.....)))))))).))))....(((((...(((........)))...)))))...-.)))))).------- ( -31.70, z-score =  -2.01, R)
>droAna3.scaffold_13337 4673009 96 - 23293914
GUCCUUCACUAAACUGAAGUUUCGGCUAAAAUCCCAAAAAAAAAACGGCUAGAUAAA-AGCUAGAAACGCG----UUAAUACUUCCGCAACAAAAAGGUCA-------
(.((((............(((((((........))...........((((.......-)))).)))))(((----..(....)..)))......)))).).------- ( -15.40, z-score =  -1.00, R)
>droEre2.scaffold_4784 10643546 95 - 25762168
UGGGUUUAAUGGGCUAACAUUUUGCGUGUAACAGCACGCUGAGUGCUGUCCGUCGAUCAGCUGAUUCUGCAGUUUUCGGUUUUUUAAAUACUGAA-------------
..((((..((((((...(((((.((((((....)))))).)))))..)))))).))))(((((......)))))((((((.........))))))------------- ( -28.40, z-score =  -1.83, R)
>droYak2.chr3L 8939986 107 - 24197627
UGGGUUUAAUGGGCUAACAUUUUGCGUUUAACAGCACGCUGAGUGCUGUGCGGCGAGCAGCUGAUUCUGCAGUUUUCGGUUUUUUUA-UACCGAAAUAAUAAUUGGUA
............(((((....((((.....(((((((.....))))))).((((.....)))).....)))).(((((((.......-.)))))))......))))). ( -29.90, z-score =  -0.93, R)
>droSec1.super_19 777923 100 + 1257711
UGGGUUUAAUGGGCUAACAUUUCGCGUUCAACAGCACGCUGAGUGCUGUUCGGCGAGCAGCUGAUUCUGCAGUUUUCGGUAGUUUUAGUAUU-AGUUGGUA-------
............((((((..(((((....((((((((.....))))))))..)))))..(((((..((((........))))..)))))...-.)))))).------- ( -32.30, z-score =  -2.10, R)
>droSim1.chr3L 18115632 100 + 22553184
UGGGUUUAAUGGGCUAACAUUUCGCGUCCAACAGCACGCUGAGUGCUGUUCGGCGAGCAGCUGAUUCUGCAGUUUUCGGUAUUUUCAGUAUU-AUUUGGUA-------
............(((((.......((((.((((((((.....)))))))).))))....(((((...(((........)))...)))))...-..))))).------- ( -27.10, z-score =  -0.48, R)
>consensus
UGGGUUUAAUGGGCUAACAUUUCGCGUCCAACAGCACGCUGAGUGCUGUUCGGCGAGCAGCUGAUUCUGCAGUUUUCGGUAUUUUCAGUACU_AAUUGGUA_______
...((..((((......))))..))(((.((((((((.....)))))))).)))(((.(((((......))))))))............................... (-14.72 = -16.42 +   1.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,813,810 – 18,813,910
Length 100
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 69.42
Shannon entropy 0.58011
G+C content 0.43452
Mean single sequence MFE -21.77
Consensus MFE -9.97
Energy contribution -10.92
Covariance contribution 0.95
Combinations/Pair 1.38
Mean z-score -1.80
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.50
SVM RNA-class probability 0.944832
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 18813810 100 - 24543557
-------UACCAACU-AAUACUGAAAAUACCGAAAACUGCAAAAUCAGCUGCUCGCCGAACAGCACUCAGCGUGCUGUUGGACGCGAAAUGUUAGCCCAUUAAACCCA
-------......((-((((..................(((........)))(((((.((((((((.....)))))))).)..))))..))))))............. ( -22.50, z-score =  -2.24, R)
>droAna3.scaffold_13337 4673009 96 + 23293914
-------UGACCUUUUUGUUGCGGAAGUAUUAA----CGCGUUUCUAGCU-UUUAUCUAGCCGUUUUUUUUUUGGGAUUUUAGCCGAAACUUCAGUUUAGUGAAGGAC
-------...(((((.....((.(((((.....----.(((...((((..-.....)))).)))......(((((........)))))))))).)).....))))).. ( -17.70, z-score =   0.46, R)
>droEre2.scaffold_4784 10643546 95 + 25762168
-------------UUCAGUAUUUAAAAAACCGAAAACUGCAGAAUCAGCUGAUCGACGGACAGCACUCAGCGUGCUGUUACACGCAAAAUGUUAGCCCAUUAAACCCA
-------------..((((.(((........))).))))........((((((((...((((((((.....))))))))...))......))))))............ ( -19.40, z-score =  -1.23, R)
>droYak2.chr3L 8939986 107 + 24197627
UACCAAUUAUUAUUUCGGUA-UAAAAAAACCGAAAACUGCAGAAUCAGCUGCUCGCCGCACAGCACUCAGCGUGCUGUUAAACGCAAAAUGUUAGCCCAUUAAACCCA
............(((((((.-.......)))))))...((((......))))..((...(((((((.....))))))).....))..((((......))))....... ( -23.80, z-score =  -2.22, R)
>droSec1.super_19 777923 100 - 1257711
-------UACCAACU-AAUACUAAAACUACCGAAAACUGCAGAAUCAGCUGCUCGCCGAACAGCACUCAGCGUGCUGUUGAACGCGAAAUGUUAGCCCAUUAAACCCA
-------......((-((((..................((((......))))((((..((((((((.....))))))))....))))..))))))............. ( -23.70, z-score =  -3.24, R)
>droSim1.chr3L 18115632 100 - 22553184
-------UACCAAAU-AAUACUGAAAAUACCGAAAACUGCAGAAUCAGCUGCUCGCCGAACAGCACUCAGCGUGCUGUUGGACGCGAAAUGUUAGCCCAUUAAACCCA
-------........-....((((..............((((......))))(((((.((((((((.....)))))))).)..))))....))))............. ( -23.50, z-score =  -2.32, R)
>consensus
_______UACCAAUU_AAUACUGAAAAUACCGAAAACUGCAGAAUCAGCUGCUCGCCGAACAGCACUCAGCGUGCUGUUGAACGCGAAAUGUUAGCCCAUUAAACCCA
...............................................((((.((((..((((((((.....))))))))....)))).....))))............ ( -9.97 = -10.92 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:36:28 2011