Locus 15622

Sequence ID dm3.chrX
Location 20,047,031 – 20,047,143
Length 112
Max. P 0.958968
window21538 window21539

overview

Window 8

Location 20,047,031 – 20,047,143
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.51
Shannon entropy 0.21128
G+C content 0.39817
Mean single sequence MFE -26.28
Consensus MFE -19.59
Energy contribution -20.03
Covariance contribution 0.45
Combinations/Pair 1.10
Mean z-score -2.19
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.861447
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20047031 112 + 22422827
GUUGCCUU-----UAC---UCCGGCCUCCGUUUGCGUGCAAUUCCCAUUGAAAUACAAUAUUUAUUUGCAUUUCCAAUUAGCAACUGACUUGGAAACAAUAAUUGCAAACGAACAGUCUG
((((((..-----...---...)))...(((((((((((((.....((((.....))))......))))))((((((((((...)))).)))))).........))))))))))...... ( -26.20, z-score =  -3.02, R)
>droAna3.scaffold_13417 1709168 120 + 6960332
GUUGCCAUUCGUGUGUCGGUGUGUCCUUCCGUUGCGUGCAAUUCCCACUGCAAUGCAAUAUUUAUUUGCAUUUCCAAUUAGCAACCGACUUGGAAACAUAAAUUUUAAACGACCCGAUGG
....((((.((.(.((((((((.(((.((.(((((..(((........)))(((((((.......)))))))........))))).))...))).))))..........))))))))))) ( -30.90, z-score =  -1.78, R)
>droEre2.scaffold_4690 10174392 112 + 18748788
GUUGCCUU-----UAC---UCCGGCCGUCGCUUGCGUGCAAUUCCCAUUGAAAUACAAUAUUUAUUUGCAUUUCCAAUUAGCAACUGACUUGGAAACAAUAAUUGCAAACGAACAGUCCA
...(((..-----...---...)))..(((.((((((((((.....((((.....))))......))))))((((((((((...)))).)))))).........)))).)))........ ( -22.70, z-score =  -1.19, R)
>droYak2.chrX 10392112 117 - 21770863
GUUGCCUUCUGUGUGU---UGCGGCCUCCGUUUGCGUGCAAUUCCCAUUGAAAUACAAUAUUUAUUUGCAUUUCCAAUUAGCAACUGACUUGGAAACAAUAAUUGCAAACGAACAGUCUA
(((((...(.....).---.)))))...(((((((((((((.....((((.....))))......))))))((((((((((...)))).)))))).........)))))))......... ( -25.50, z-score =  -1.00, R)
>droSec1.super_8 2273447 112 + 3762037
GUUGCCUU-----UAC---UCCGGCCUCCGUUUGCGUGCAAUUCCCAUUGAAAUACAAUAUUUAUUUGCAUUUCCAAUUAGCAACUGACUUGGAAACAAUAAUUGCAAACGAACAGUCUA
((((((..-----...---...)))...(((((((((((((.....((((.....))))......))))))((((((((((...)))).)))))).........))))))))))...... ( -26.20, z-score =  -3.08, R)
>droSim1.chrX 15425123 112 + 17042790
GUUGCCUU-----UAC---UCCGGCCUCCGUUUGCGUGCAAUUCCCAUUGAAAUACAAUAUUUAUUUGCAUUUCCAAUUAGCAACUGACUUGGAAACAAUAAUUGCAAACGAACAGUCUA
((((((..-----...---...)))...(((((((((((((.....((((.....))))......))))))((((((((((...)))).)))))).........))))))))))...... ( -26.20, z-score =  -3.08, R)
>consensus
GUUGCCUU_____UAC___UCCGGCCUCCGUUUGCGUGCAAUUCCCAUUGAAAUACAAUAUUUAUUUGCAUUUCCAAUUAGCAACUGACUUGGAAACAAUAAUUGCAAACGAACAGUCUA
......................(((...(((((((((((((.....((((.....))))......))))))((((((((((...)))).)))))).........)))))))....))).. (-19.59 = -20.03 +   0.45)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,047,031 – 20,047,143
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 88.51
Shannon entropy 0.21128
G+C content 0.39817
Mean single sequence MFE -32.19
Consensus MFE -25.30
Energy contribution -26.19
Covariance contribution 0.89
Combinations/Pair 1.12
Mean z-score -2.45
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.66
SVM RNA-class probability 0.958968
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 20047031 112 - 22422827
CAGACUGUUCGUUUGCAAUUAUUGUUUCCAAGUCAGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGUAUUUCAAUGGGAAUUGCACGCAAACGGAGGCCGGA---GUA-----AAGGCAAC
.......(((((((((.....(((....)))(((((((.(((....(((((((((.......)))))))))..))).))))).))))))))))).(((...---...-----..)))... ( -32.00, z-score =  -2.71, R)
>droAna3.scaffold_13417 1709168 120 - 6960332
CCAUCGGGUCGUUUAAAAUUUAUGUUUCCAAGUCGGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGCAUUGCAGUGGGAAUUGCACGCAACGGAAGGACACACCGACACACGAAUGGCAAC
((((((.((((...........(((.(((...((.(((((........(((((((.......)))))))(((((....)))))..))))).)).))).))).))))...)).)))).... ( -33.70, z-score =  -1.96, R)
>droEre2.scaffold_4690 10174392 112 - 18748788
UGGACUGUUCGUUUGCAAUUAUUGUUUCCAAGUCAGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGUAUUUCAAUGGGAAUUGCACGCAAGCGACGGCCGGA---GUA-----AAGGCAAC
.((.((((.(((((((.....(((....)))(((((((.(((....(((((((((.......)))))))))..))).))))).)))))))))))))))...---...-----........ ( -32.60, z-score =  -2.35, R)
>droYak2.chrX 10392112 117 + 21770863
UAGACUGUUCGUUUGCAAUUAUUGUUUCCAAGUCAGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGUAUUUCAAUGGGAAUUGCACGCAAACGGAGGCCGCA---ACACACAGAAGGCAAC
.......(((((((((.....(((....)))(((((((.(((....(((((((((.......)))))))))..))).))))).))))))))))).(((...---..........)))... ( -30.82, z-score =  -1.99, R)
>droSec1.super_8 2273447 112 - 3762037
UAGACUGUUCGUUUGCAAUUAUUGUUUCCAAGUCAGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGUAUUUCAAUGGGAAUUGCACGCAAACGGAGGCCGGA---GUA-----AAGGCAAC
.......(((((((((.....(((....)))(((((((.(((....(((((((((.......)))))))))..))).))))).))))))))))).(((...---...-----..)))... ( -32.00, z-score =  -2.86, R)
>droSim1.chrX 15425123 112 - 17042790
UAGACUGUUCGUUUGCAAUUAUUGUUUCCAAGUCAGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGUAUUUCAAUGGGAAUUGCACGCAAACGGAGGCCGGA---GUA-----AAGGCAAC
.......(((((((((.....(((....)))(((((((.(((....(((((((((.......)))))))))..))).))))).))))))))))).(((...---...-----..)))... ( -32.00, z-score =  -2.86, R)
>consensus
UAGACUGUUCGUUUGCAAUUAUUGUUUCCAAGUCAGUUGCUAAUUGGAAAUGCAAAUAAAUAUUGUAUUUCAAUGGGAAUUGCACGCAAACGGAGGCCGGA___GUA_____AAGGCAAC
.......(((((((((.....(((....)))(((((((.(((....(((((((((.......)))))))))..))).))))).))))))))))).(((................)))... (-25.30 = -26.19 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:02:54 2011