Locus 7659

Sequence ID dm3.chr3L
Location 16,292,187 – 16,292,288
Length 101
Max. P 0.941713
window10541 window10542

overview

Window 1

Location 16,292,187 – 16,292,288
Length 101
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 62.91
Shannon entropy 0.51171
G+C content 0.50258
Mean single sequence MFE -32.11
Consensus MFE -19.56
Energy contribution -20.24
Covariance contribution 0.68
Combinations/Pair 1.33
Mean z-score -1.52
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.941713
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16292187 101 + 24543557
-------------CGGCCGAACAGGGACCGUAUGGUCAGGACUAAGAUCCCUGUUCGGGCGCCAUCGUACCGUUCCUGUUCUACUCUCUGCAGUUACUC-UCCAUAUAACCUGCG
-------------((.(((((((((((.(...((((....)))).).))))))))))).))..........((..((((..........))))..))..-............... ( -31.50, z-score =  -1.52, R)
>droEre2.scaffold_4784 18534847 107 + 25762168
AAGAUUAACU-GGCGCCCGGGCAGGGAUUAU-----CAGGACUAAGGUCCCUGUUCGGGCGUCAUCGUACUGUUCCGGGCUUUCUGUCUCCAGUCUUCAGUUUGUGCAAUAUU--
.........(-((((((((((((((((((..-----.........)))))))))))))))))))..((((......(((((..........))))).......))))......-- ( -40.82, z-score =  -3.24, R)
>droYak2.chr3L 2293900 107 - 24197627
AAGAUUGUCUUGGCGCCCGAGCAGGAAUUAU-----CAGGAAUAGGGUCCA-GUUCAGGCGAAUUCGUACGGUUUCGGGUUUCCUAUCUCCAGUCUUUAAUUUGUACAAUAUU--
(((((((...(((((((.((((.(((.((((-----.....))))..))).-)))).))))((((((........))))))..)))....)))))))................-- ( -24.00, z-score =   0.20, R)
>consensus
AAGAUU__CU_GGCGCCCGAGCAGGGAUUAU_____CAGGACUAAGGUCCCUGUUCGGGCGACAUCGUACCGUUCCGGGUUUACUAUCUCCAGUCUUUA_UUUGUACAAUAUU__
.............((((((((((((((((................)))))))))))))))).....((((......((((............)))).......))))........ (-19.56 = -20.24 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,292,187 – 16,292,288
Length 101
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 62.91
Shannon entropy 0.51171
G+C content 0.50258
Mean single sequence MFE -27.97
Consensus MFE -15.63
Energy contribution -16.75
Covariance contribution 1.12
Combinations/Pair 1.19
Mean z-score -1.19
Structure conservation index 0.56
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.49
SVM RNA-class probability 0.715388
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16292187 101 - 24543557
CGCAGGUUAUAUGGA-GAGUAACUGCAGAGAGUAGAACAGGAACGGUACGAUGGCGCCCGAACAGGGAUCUUAGUCCUGACCAUACGGUCCCUGUUCGGCCG-------------
.((((.((((.....-..))))))))...(.((.(((((((...((.((...((..(((.....)))..))..)))).((((....))))))))))).))).------------- ( -32.20, z-score =  -0.87, R)
>droEre2.scaffold_4784 18534847 107 - 25762168
--AAUAUUGCACAAACUGAAGACUGGAGACAGAAAGCCCGGAACAGUACGAUGACGCCCGAACAGGGACCUUAGUCCUG-----AUAAUCCCUGCCCGGGCGCC-AGUUAAUCUU
--...........(((((....(((....)))...((((((.......((........))..((((((..(((....))-----)...)))))).))))))..)-))))...... ( -32.80, z-score =  -2.82, R)
>droYak2.chr3L 2293900 107 + 24197627
--AAUAUUGUACAAAUUAAAGACUGGAGAUAGGAAACCCGAAACCGUACGAAUUCGCCUGAAC-UGGACCCUAUUCCUG-----AUAAUUCCUGCUCGGGCGCCAAGACAAUCUU
--....((((((...................((....))(....)))))))...(((((((.(-.(((...((((...)-----)))..))).).)))))))............. ( -18.90, z-score =   0.13, R)
>consensus
__AAUAUUGUACAAA_UAAAGACUGGAGACAGAAAACCCGGAACAGUACGAUGACGCCCGAACAGGGACCUUAGUCCUG_____AUAAUCCCUGCUCGGGCGCC_AG__AAUCUU
......................(((....)))......................(((((((.((((((....................)))))).)))))))............. (-15.63 = -16.75 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:31:03 2011