Locus 1381

Sequence ID dm3.chr2L
Location 10,748,194 – 10,748,286
Length 92
Max. P 0.999280
window1881 window1882

overview

Window 1

Location 10,748,194 – 10,748,286
Length 92
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 68.46
Shannon entropy 0.54249
G+C content 0.50191
Mean single sequence MFE -34.52
Consensus MFE -21.16
Energy contribution -20.36
Covariance contribution -0.80
Combinations/Pair 1.17
Mean z-score -2.82
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.76
SVM RNA-class probability 0.999280
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10748194 92 + 23011544
GCGGCAACAACAUGCAACAUGUUGCAUGUGCAGCGCC---AGCAGCAGCAGCUGGCC-----CAGCAGCAACAACAAAGUCGGCGCUAGCUGCGAAUAAA
(((((....((((((((....))))))))..((((((---.((....)).((((...-----...))))............)))))).)))))....... ( -38.80, z-score =  -2.05, R)
>dp4.chr4_group4 2952874 99 + 6586962
GCGGCCGUAACAUGCAACAUGUUGCAUGUUCAGCGGCCAGAAAAACAACAACAAACUACACAUAGUUGUAUGUACAUAUAUAAGG-UAGCUGCGAAUAAU
(((((((((((((((((....)))))))))..))))))......((((((((............))))).)))............-.....))....... ( -30.10, z-score =  -3.06, R)
>droPer1.super_10 1967495 98 + 3432795
GCGGCCGUAACAUGCAACAUGUUGCAUGUUCAGCGGCCAGAAAAACAACAACAAGCUACACAUAGU-AUAUGUACAUAUAUAAGG-UAGCUGCGAAUAAA
(((((((((((((((((....)))))))))..))))))...............((((((...(.((-((((....)))))).).)-)))))))....... ( -36.50, z-score =  -5.51, R)
>droEre2.scaffold_4929 11958144 86 - 26641161
GCGGCAACAACAUGCAACAUGUUGCAUGUGCAGCG---------GCAACAGCUGGCC-----CAGCAGCAGCAGCAAAAGCGGCGCUGGCUGCGAAUAAA
(((((....((((((((....)))))))).(((((---------.(....((((...-----...))))....((....))).))))))))))....... ( -37.10, z-score =  -1.16, R)
>droYak2.chr2L 7152858 69 + 22324452
GCGGCAACAACAUGCAACAUGUUGCAUGUGCAGCG---------GCAACAGCUGGCC-----CAGCAGC-----------------UAGCUGCGAAUAAA
((.((....((((((((....))))))))...)).---------))..((((((((.-----.....))-----------------))))))........ ( -30.10, z-score =  -2.33, R)
>consensus
GCGGCAACAACAUGCAACAUGUUGCAUGUGCAGCG_C___A__AGCAACAGCUGGCC_____CAGCAGCAUCAACAAAUACAACG_UAGCUGCGAAUAAA
(((((....((((((((....)))))))).....................((((.(........)))))...................)))))....... (-21.16 = -20.36 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,748,194 – 10,748,286
Length 92
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 68.46
Shannon entropy 0.54249
G+C content 0.50191
Mean single sequence MFE -32.80
Consensus MFE -19.67
Energy contribution -18.03
Covariance contribution -1.64
Combinations/Pair 1.35
Mean z-score -1.66
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.95
SVM RNA-class probability 0.976497
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10748194 92 - 23011544
UUUAUUCGCAGCUAGCGCCGACUUUGUUGUUGCUGCUG-----GGCCAGCUGCUGCUGCU---GGCGCUGCACAUGCAACAUGUUGCAUGUUGUUGCCGC
.......((((((((((.((((......)))).)))))-----.((((((.......)))---))))))))((((((((....))))))))......... ( -40.40, z-score =  -1.59, R)
>dp4.chr4_group4 2952874 99 - 6586962
AUUAUUCGCAGCUA-CCUUAUAUAUGUACAUACAACUAUGUGUAGUUUGUUGUUGUUUUUCUGGCCGCUGAACAUGCAACAUGUUGCAUGUUACGGCCGC
.......(((((.(-(....((((((((........))))))))....)).)))))......(((((...(((((((((....))))))))).))))).. ( -31.40, z-score =  -2.79, R)
>droPer1.super_10 1967495 98 - 3432795
UUUAUUCGCAGCUA-CCUUAUAUAUGUACAUAU-ACUAUGUGUAGCUUGUUGUUGUUUUUCUGGCCGCUGAACAUGCAACAUGUUGCAUGUUACGGCCGC
.......(((((((-((.(((((((....))))-).)).).))))))...............(((((...(((((((((....))))))))).))))))) ( -32.00, z-score =  -3.12, R)
>droEre2.scaffold_4929 11958144 86 + 26641161
UUUAUUCGCAGCCAGCGCCGCUUUUGCUGCUGCUGCUG-----GGCCAGCUGUUGC---------CGCUGCACAUGCAACAUGUUGCAUGUUGUUGCCGC
.......(((((((((((.((.......)).)).))))-----(((........))---------))))))((((((((....))))))))......... ( -33.10, z-score =   0.02, R)
>droYak2.chr2L 7152858 69 - 22324452
UUUAUUCGCAGCUA-----------------GCUGCUG-----GGCCAGCUGUUGC---------CGCUGCACAUGCAACAUGUUGCAUGUUGUUGCCGC
.......((((((.-----------------(((....-----))).)))))).((---------.((.((((((((((....))))))).))).)).)) ( -27.10, z-score =  -0.84, R)
>consensus
UUUAUUCGCAGCUA_CCCCAUAUAUGUACAUGCUGCUG_____GGCCAGCUGUUGCU__U___G_CGCUGCACAUGCAACAUGUUGCAUGUUGUUGCCGC
.......(((((...................((((((......)).)))).)))))..........((.((((((((((....))))))).))).))... (-19.67 = -18.03 +  -1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:51 2011