Locus 1311

Sequence ID dm3.chr2L
Location 10,095,849 – 10,095,940
Length 91
Max. P 0.947734
window1790 window1791

overview

Window 0

Location 10,095,849 – 10,095,940
Length 91
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 70.93
Shannon entropy 0.48370
G+C content 0.40706
Mean single sequence MFE -24.60
Consensus MFE -11.10
Energy contribution -12.44
Covariance contribution 1.34
Combinations/Pair 1.24
Mean z-score -2.34
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.53
SVM RNA-class probability 0.947734
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10095849 91 + 23011544
AAAUUUCUGGUCAGAUAAAA--------ACAACUUUUGGCAACGUUUCGUGACAUGUAGUUUCCAAAAA-CGCGUUGUCCCAGAAUGGC-GAAAGCCAGCC--------------
....((((((...(((((..--------.....((((((.(((....(((...)))..))).)))))).-....)))))))))))((((-....))))...-------------- ( -24.10, z-score =  -1.97, R)
>droAna3.scaffold_12916 13928493 115 + 16180835
GUAUUUCUCUUUAAAUGAAAUUCUUAAAGUCCUCUUUGGAAUCCUUUCCCUUUUAGAAUUUCUCACAAAAUGGACUCUCGCAUAAAACUGAGUCAAAGGACAUAUAAUGCAUUCC
(((((..(((((....((((((((.((((........((((....)))))))).))))))))..........(((((............))))).))))).....)))))..... ( -22.20, z-score =  -2.27, R)
>droEre2.scaffold_4929 10711251 91 + 26641161
AAAUUUCUGUGCUGAUAAAA--------ACAACUUUUGGCAACGUUCCGUGACAUGUAGUUGCCAAAAA-CUGGUUGUCCCAGAAUGCC-GAAAGCCUGCC--------------
....................--------....(((((((((...(((.(.((((..(((((......))-)))..)))).).)))))))-)))))......-------------- ( -21.40, z-score =  -1.51, R)
>droYak2.chr2L 12779781 93 + 22324452
AAAUUUCUGGUCUGAUAAAA--------ACAACUUUUGGCAACGUUUCGUGACAUGUAGUUGCCAAAAAACUGGUUGUACCAGAAUGCCCAAAAGCCUGCC--------------
....(((((((.........--------(((((((((((((((....(((...)))..))))))))).....)))))))))))))................-------------- ( -23.20, z-score =  -1.84, R)
>droSec1.super_3 5533831 91 + 7220098
AAAUUUCUGGUCAGAUAAAA--------ACAACUUUUGGCAACGUCUCGUGACAUGUAGUUGCCAAAAA-UGGAUUGUCCCAGAAUGGC-GAAAGUCUGCC--------------
....((((((...(((((..--------.((..(((((((((((((....))).....)))))))))).-))..))))))))))).(((-....)))....-------------- ( -28.60, z-score =  -3.52, R)
>droSim1.chr2L 9884396 91 + 22036055
AAAUUUCUGGUCAGAUAAAA--------ACAACUUUUGGCAACGUUUCGUGACAUGUAGUUGCCAAAAA-UGGGUUGUCCCAGAAUGGC-GAAAGUCUGCC--------------
....((((((...(((((..--------.((..((((((((((....(((...)))..)))))))))).-))..))))))))))).(((-....)))....-------------- ( -28.10, z-score =  -2.94, R)
>consensus
AAAUUUCUGGUCAGAUAAAA________ACAACUUUUGGCAACGUUUCGUGACAUGUAGUUGCCAAAAA_CGGGUUGUCCCAGAAUGCC_GAAAGCCUGCC______________
....((((((..................(((((((((((((((...............))))))))).....)))))).)))))).............................. (-11.10 = -12.44 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,095,849 – 10,095,940
Length 91
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 70.93
Shannon entropy 0.48370
G+C content 0.40706
Mean single sequence MFE -24.03
Consensus MFE -11.09
Energy contribution -12.54
Covariance contribution 1.45
Combinations/Pair 1.19
Mean z-score -1.67
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.30
SVM RNA-class probability 0.636495
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10095849 91 - 23011544
--------------GGCUGGCUUUC-GCCAUUCUGGGACAACGCG-UUUUUGGAAACUACAUGUCACGAAACGUUGCCAAAAGUUGU--------UUUUAUCUGACCAGAAAUUU
--------------...((((....-))))((((((((((((...-.((((((.(((...............))).)))))))))))--------).........)))))).... ( -20.06, z-score =  -0.14, R)
>droAna3.scaffold_12916 13928493 115 - 16180835
GGAAUGCAUUAUAUGUCCUUUGACUCAGUUUUAUGCGAGAGUCCAUUUUGUGAGAAAUUCUAAAAGGGAAAGGAUUCCAAAGAGGACUUUAAGAAUUUCAUUUAAAGAGAAAUAC
(((((...(((...((((((((((((.((.....))..)))))..(((((.((....)).))))).((((....))))..)))))))..)))..)))))................ ( -24.00, z-score =  -0.74, R)
>droEre2.scaffold_4929 10711251 91 - 26641161
--------------GGCAGGCUUUC-GGCAUUCUGGGACAACCAG-UUUUUGGCAACUACAUGUCACGGAACGUUGCCAAAAGUUGU--------UUUUAUCAGCACAGAAAUUU
--------------(((((..((((-(.....((((.....))))-....(((((......))))))))))..)))))....((((.--------......)))).......... ( -23.00, z-score =  -1.26, R)
>droYak2.chr2L 12779781 93 - 22324452
--------------GGCAGGCUUUUGGGCAUUCUGGUACAACCAGUUUUUUGGCAACUACAUGUCACGAAACGUUGCCAAAAGUUGU--------UUUUAUCAGACCAGAAAUUU
--------------.....(((....))).((((((((((((.....((((((((((...............)))))))))))))))--------.........))))))).... ( -24.06, z-score =  -1.50, R)
>droSec1.super_3 5533831 91 - 7220098
--------------GGCAGACUUUC-GCCAUUCUGGGACAAUCCA-UUUUUGGCAACUACAUGUCACGAGACGUUGCCAAAAGUUGU--------UUUUAUCUGACCAGAAAUUU
--------------(((........-))).((((((((((((...-.((((((((((.....(((....))))))))))))))))))--------).........)))))).... ( -26.90, z-score =  -3.23, R)
>droSim1.chr2L 9884396 91 - 22036055
--------------GGCAGACUUUC-GCCAUUCUGGGACAACCCA-UUUUUGGCAACUACAUGUCACGAAACGUUGCCAAAAGUUGU--------UUUUAUCUGACCAGAAAUUU
--------------(((........-))).((((((((((((...-.((((((((((...............)))))))))))))))--------).........)))))).... ( -26.16, z-score =  -3.17, R)
>consensus
______________GGCAGGCUUUC_GCCAUUCUGGGACAACCCA_UUUUUGGCAACUACAUGUCACGAAACGUUGCCAAAAGUUGU________UUUUAUCUGACCAGAAAUUU
..............................((((((.(((((.....((((((((((...............)))))))))))))))..................)))))).... (-11.09 = -12.54 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:29:33 2011