Locus 8497

Sequence ID dm3.chr3L
Location 23,863,129 – 23,863,215
Length 86
Max. P 0.881777
window11670 window11671

overview

Window 0

Location 23,863,129 – 23,863,215
Length 86
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 58.13
Shannon entropy 0.73171
G+C content 0.56318
Mean single sequence MFE -31.58
Consensus MFE -11.48
Energy contribution -13.28
Covariance contribution 1.80
Combinations/Pair 1.31
Mean z-score -1.49
Structure conservation index 0.36
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.05
SVM RNA-class probability 0.881777
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23863129 86 + 24543557
UUGUAGCUUUGGCAUCUCCCGUUACAGCGCG--GCGGCAGCGUGUGGUCGCUGUCGCCGAGUGUGGUUCG--------AAGGGUAGCACGGAGAAG
.....((....)).((((((((....)))((--(((((((((......))))))))))).((((...((.--------...))..))))))))).. ( -38.70, z-score =  -2.54, R)
>droSim1.chrU 8524665 88 - 15797150
UUGCAGCUUUGGCAUCUCCCGUUACAGCGCGCGGCGGCAGCGUGUGGUCGCUGUCGCCGAGUGUGGUUCG--------AAGGAUAGCACGGAGAAG
......(((((((((((..((..((.((((.(((((((((((......))))))))))).)))).)).))--------..)))).)).)))))... ( -41.60, z-score =  -2.59, R)
>droYak2.chrU 7465418 94 + 28119190
UUGUAGUUUUCGGAAGAACCGUUAUAGCGCG--GCGCCAGCGUGUUGUUGCUGAUGCCGAGUGUGUUUCGCUGCACAUGUGGUAAGCACGUAGAAG
.(((((..(((....)))...)))))((.((--(((.(((((......))))).))))).))((((((.((..(....)..))))))))....... ( -31.50, z-score =  -0.84, R)
>droWil1.scaffold_181154 230293 81 + 4610121
-------------UUGACUUCUUGUUGCUCG--CCGAUACCGCGUUUUUACUGCAGCUAUCUCGCUUAAUCUCACUAGAACGUUCCCUCGAGGCAG
-------------............(((.(.--.(((....(((((((......(((......)))..........)))))))....))).)))). ( -11.69, z-score =   1.36, R)
>droMoj3.scaffold_6498 344502 84 - 3408170
-UGUCGCUUAAG-AAGUACCGUCUUAGCGGG--GCGACAGCGUCGUGUCGCUGUCGCCGAGUGAGGUUCG--------AUGGUAGGCACAAAGAAU
-..((((((...-.....((((....))))(--(((((((((......)))))))))))))))).((((.--------.((.......))..)))) ( -34.40, z-score =  -2.84, R)
>consensus
UUGUAGCUUUGG_AUGUCCCGUUAUAGCGCG__GCGACAGCGUGUUGUCGCUGUCGCCGAGUGUGGUUCG________AAGGUUAGCACGAAGAAG
..........................((((...(((((((((......)))))))))...))))................................ (-11.48 = -13.28 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 23,863,129 – 23,863,215
Length 86
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 58.13
Shannon entropy 0.73171
G+C content 0.56318
Mean single sequence MFE -24.60
Consensus MFE -8.14
Energy contribution -10.46
Covariance contribution 2.32
Combinations/Pair 1.25
Mean z-score -1.24
Structure conservation index 0.33
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.566370
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 23863129 86 - 24543557
CUUCUCCGUGCUACCCUU--------CGAACCACACUCGGCGACAGCGACCACACGCUGCCGC--CGCGCUGUAACGGGAGAUGCCAAAGCUACAA
..(((((((.........--------...)).((((.(((((.(((((......))))).)))--)).).)))....))))).............. ( -25.60, z-score =  -1.33, R)
>droSim1.chrU 8524665 88 + 15797150
CUUCUCCGUGCUAUCCUU--------CGAACCACACUCGGCGACAGCGACCACACGCUGCCGCCGCGCGCUGUAACGGGAGAUGCCAAAGCUGCAA
..(((((((((.......--------.((.......))((((.(((((......))))).))))))))(......).)))))(((.......))). ( -27.90, z-score =  -0.78, R)
>droYak2.chrU 7465418 94 - 28119190
CUUCUACGUGCUUACCACAUGUGCAGCGAAACACACUCGGCAUCAGCAACAACACGCUGGCGC--CGCGCUAUAACGGUUCUUCCGAAAACUACAA
.......((((........((((........))))...(((..((((........))))..))--))))).....(((.....))).......... ( -23.90, z-score =  -1.44, R)
>droWil1.scaffold_181154 230293 81 - 4610121
CUGCCUCGAGGGAACGUUCUAGUGAGAUUAAGCGAGAUAGCUGCAGUAAAAACGCGGUAUCGG--CGAGCAACAAGAAGUCAA-------------
.(((((((..(((....)))..)))).....((..((((.((((.((....)))))))))).)--)..)))............------------- ( -18.60, z-score =   0.33, R)
>droMoj3.scaffold_6498 344502 84 + 3408170
AUUCUUUGUGCCUACCAU--------CGAACCUCACUCGGCGACAGCGACACGACGCUGUCGC--CCCGCUAAGACGGUACUU-CUUAAGCGACA-
..................--------............((((((((((......)))))))))--).((((((((.......)-))).))))...- ( -27.00, z-score =  -2.98, R)
>consensus
CUUCUCCGUGCUAACCUU________CGAACCACACUCGGCGACAGCGACAACACGCUGCCGC__CGCGCUAUAACGGGACAU_CCAAAGCUACAA
.......((((...............(((.......)))(((((((((......)))))))))...)))).......................... ( -8.14 = -10.46 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:46:42 2011