Locus 8145

Sequence ID dm3.chr3L
Location 20,567,512 – 20,567,611
Length 99
Max. P 0.998394
window11205 window11206

overview

Window 5

Location 20,567,512 – 20,567,611
Length 99
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 72.40
Shannon entropy 0.51027
G+C content 0.53410
Mean single sequence MFE -28.88
Consensus MFE -10.16
Energy contribution -10.88
Covariance contribution 0.72
Combinations/Pair 1.06
Mean z-score -2.51
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.11
SVM RNA-class probability 0.892634
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20567512 99 + 24543557
--GAGUGGGUUGGGAAGAGGCGGUGCGGGGAGG--GGUUUAGGGG-CGAGGGCUCCACAAUUAUCUACACAAUAUGGCAAUCACAUAUGUAGAUAUGCACACAC--
--..(((.(((.......))).(((((......--......((((-(....))))).....((((((((...((((.......))))))))))))))))).)))-- ( -25.90, z-score =  -1.95, R)
>droSim1.chr3L 19919848 99 + 22553184
--GAGUGUGAUGGGAAGGGGUGGGAGGGGAGGG--GCUCGAGGGG-CGAGGGCUCCACAAUUAUCUACACAAUAUGGCAAUCACAUAUGUAGAUAUGCACACAC--
--..(((((.....................(((--((((......-...))))))).....((((((((...((((.......))))))))))))..)))))..-- ( -28.40, z-score =  -2.45, R)
>droYak2.chr3L 4212390 91 - 24197627
-----------GAAAGGCAGGGGAAUGGGAAGG--GGUUCCGGGGGCGAGGGCUCCACAAUUAUCUACACAAUAUGGCAAUCACAUAUGUAGAUAUGCACACAC--
-----------.....(((..(((((.......--.))))).(((((....))))).....((((((((...((((.......)))))))))))))))......-- ( -24.80, z-score =  -2.87, R)
>droEre2.scaffold_4784 20261932 83 + 25762168
-----------------GACAGGAAUGGGA-GG--GGUUCCGGGG-CGAGGGCUCCACAAUUAUCUACACAAUACGGCAAUCACAUAUGUAGAUAUGCACACAC--
-----------------....(((((....-..--.)))))((((-(....))))).....((((((((..................)))))))).........-- ( -18.37, z-score =  -1.24, R)
>droAna3.scaffold_13337 10920363 102 + 23293914
GCGAUGGCGGCGGAGGUGCCAGUGGCAGGGAGG--ACGAGGUGGGGCCAGGGCCCCACAAUUAUCUACACAAUAUGGCAAUCACAUAUGUAGAUAUGCACACAC--
....(((((.(...).)))))((((((......--.....(((((((....)))))))...((((((((...((((.......))))))))))))))).)))..-- ( -39.50, z-score =  -2.98, R)
>droWil1.scaffold_180949 4130810 94 - 6375548
-----------GAGUGCCCAGGUGACGGGCGGGCGGCGCAGAGAGGGCAGGGCCC-ACAAUUAUCUACACAAUAUGGCAAUCACAUAUGUAGAUAUGCGCACACAC
-----------(..(((((.(....))))))..).(((((....((((...))))-.....((((((((...((((.......)))))))))))))))))...... ( -36.30, z-score =  -3.60, R)
>consensus
___________GGGAGGGAGAGGGACGGGAAGG__GCUUCAGGGG_CGAGGGCUCCACAAUUAUCUACACAAUAUGGCAAUCACAUAUGUAGAUAUGCACACAC__
.........................................((((.(....))))).....((((((((...((((.......))))))))))))........... (-10.16 = -10.88 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,567,512 – 20,567,611
Length 99
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 72.40
Shannon entropy 0.51027
G+C content 0.53410
Mean single sequence MFE -27.80
Consensus MFE -13.42
Energy contribution -13.28
Covariance contribution -0.14
Combinations/Pair 1.05
Mean z-score -3.16
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.34
SVM RNA-class probability 0.998394
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 20567512 99 - 24543557
--GUGUGUGCAUAUCUACAUAUGUGAUUGCCAUAUUGUGUAGAUAAUUGUGGAGCCCUCG-CCCCUAAACC--CCUCCCCGCACCGCCUCUUCCCAACCCACUC--
--(((.((((.((((((((((((((.....)))).)))))))))).....((.((....)-).))......--.......))))))).................-- ( -25.40, z-score =  -4.48, R)
>droSim1.chr3L 19919848 99 - 22553184
--GUGUGUGCAUAUCUACAUAUGUGAUUGCCAUAUUGUGUAGAUAAUUGUGGAGCCCUCG-CCCCUCGAGC--CCCUCCCCUCCCACCCCUUCCCAUCACACUC--
--(((((.(((((((((((((((((.....)))).))))))))))..)))((((..((((-.....)))).--..))))..................)))))..-- ( -27.80, z-score =  -4.86, R)
>droYak2.chr3L 4212390 91 + 24197627
--GUGUGUGCAUAUCUACAUAUGUGAUUGCCAUAUUGUGUAGAUAAUUGUGGAGCCCUCGCCCCCGGAACC--CCUUCCCAUUCCCCUGCCUUUC-----------
--......(((((((((((((((((.....)))).))))))))))...(.((.((....)).)))((((..--..))))........))).....----------- ( -19.90, z-score =  -2.03, R)
>droEre2.scaffold_4784 20261932 83 - 25762168
--GUGUGUGCAUAUCUACAUAUGUGAUUGCCGUAUUGUGUAGAUAAUUGUGGAGCCCUCG-CCCCGGAACC--CC-UCCCAUUCCUGUC-----------------
--......(((((((((((((((((.....)))).))))))))))..)))((.((....)-).))((((..--..-.....))))....----------------- ( -15.60, z-score =  -0.05, R)
>droAna3.scaffold_13337 10920363 102 - 23293914
--GUGUGUGCAUAUCUACAUAUGUGAUUGCCAUAUUGUGUAGAUAAUUGUGGGGCCCUGGCCCCACCUCGU--CCUCCCUGCCACUGGCACCUCCGCCGCCAUCGC
--..(((.(((((((((((((((((.....)))).))))))))))...(((((((....))))))).....--......)))))).(((......)))........ ( -39.50, z-score =  -3.61, R)
>droWil1.scaffold_180949 4130810 94 + 6375548
GUGUGUGCGCAUAUCUACAUAUGUGAUUGCCAUAUUGUGUAGAUAAUUGU-GGGCCCUGCCCUCUCUGCGCCGCCCGCCCGUCACCUGGGCACUC-----------
(.(((.(((((((((((((((((((.....)))).))))))))))...(.-((((...)))).)..)))))))).)(((((.....)))))....----------- ( -38.60, z-score =  -3.95, R)
>consensus
__GUGUGUGCAUAUCUACAUAUGUGAUUGCCAUAUUGUGUAGAUAAUUGUGGAGCCCUCG_CCCCCCAACC__CCUUCCCGUCCCCCCCCCUCCC___________
....((..(((((((((((((((((.....)))).))))))))))..)))...))................................................... (-13.42 = -13.28 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:40:16 2011