Locus 6818

Sequence ID dm3.chr3L
Location 10,071,781 – 10,071,935
Length 154
Max. P 0.939004
window9375 window9376

overview

Window 5

Location 10,071,781 – 10,071,935
Length 154
Sequences 5
Columns 154
Reading direction forward
Mean pairwise identity 64.79
Shannon entropy 0.63748
G+C content 0.39310
Mean single sequence MFE -34.16
Consensus MFE -15.56
Energy contribution -15.88
Covariance contribution 0.32
Combinations/Pair 1.43
Mean z-score -1.51
Structure conservation index 0.46
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.45
SVM RNA-class probability 0.939004
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10071781 154 + 24543557
UUGAAUUAUUUUUAACUUGAAUAUGUAUUUAAGGCCAUCUACACGGUUGAAUACGGAACUUCGAUGUUGCCGUGAAACAUCGCUAGAUGGCGCUAUUUCAACACCUUUGUGGCCUGCAAUAUUUUUAAGUAACUACUUCACCUUUUUGUUUGUC
..............(((((((...(((((..(((((((.......((((((((((((((......))).)))))...((((....)))).......))))))......)))))))..))))).)))))))........................ ( -36.92, z-score =  -2.41, R)
>droAna3.scaffold_13337 14983157 133 + 23293914
----ACGAUAUUCACCUUUUGACAU-----GGCGCCACCUAUGCGCAGGAUGUGGCAAAGUUCUUGAUUCCACAAUCUGCCGCUAGAUGUCAACUCCUCAAAUACGAUAUAUACAAUUUCCCUUUAAAAUGUCUUAUUUAUU------------
----..............(((((((-----(((((.......))(((((.((((((((.....)))...))))).))))).)))..)))))))......(((((.(((((..................))))).)))))...------------ ( -26.17, z-score =  -1.41, R)
>droEre2.scaffold_4784 10051406 139 + 25762168
UUGAAUUAAAUUGAGUUUGAACGGU-------GGCCACCUACACGGUUGAAUAAGGAACUUCCGUGUUGCCGUGAAACACCGCUAGAUGGCGCU-UUCCUCCACCUUCGUGGCCUGCAAAAUAUUUAAGUAGUUGUUUUUGGUUAUU-------
..................(((.(((-------((.......((((((..((((.((.....)).))))))))))......((((....))))..-.....))))))))((((((.((((..(((....))).))))....)))))).------- ( -31.90, z-score =   0.55, R)
>droSim1.chr3L 9451955 154 + 22553184
UUGAAUUACCUUUAACCUGUAAAGGUAUUUAAGGCCAUCUACACGGUUGAACACGGAACUUCGCUGUUGCCGUGAAACAUCGCUAGAUGGCGCUUUUCCAACACCUUUGUGGCCUGCAGCAAUUUUAAGUAACUACUUCACAUUAUUGUUUAUU
((((((.(((((((.....))))))))))))).((((((((..((((....((((((((......))).)))))....)))).))))))))((....(((.((....)))))...))((((((...((((....))))......)))))).... ( -39.90, z-score =  -2.25, R)
>droSec1.super_0 2287026 154 + 21120651
UUGAAUUAUCUUUAACUUGUAAAGGUAUUUAAGGCCAUCUACACGGUUGAACACGGAACUUCGCUGUUGCCGUGAAACAUCGCUAGAUGGCGCUUUUCCAACACCUUUGUGGCCUGCAACAAUUUUAAGUAACUACUUCACAUUUUUAUUUAUU
.................(((.(((.((((((((((((((((..((((....((((((((......))).)))))....)))).))))))))((....(((.((....)))))...))......))))))))....))).)))............ ( -35.90, z-score =  -2.04, R)
>consensus
UUGAAUUAUAUUUAACUUGUAAAGGUAUUUAAGGCCAUCUACACGGUUGAACACGGAACUUCGCUGUUGCCGUGAAACAUCGCUAGAUGGCGCUUUUCCAACACCUUUGUGGCCUGCAACAAUUUUAAGUAACUACUUCACAUUAUU_UUU_U_
................................((((((...((((((..(((((((....))).))))))))))...((((....))))...................))))))........................................ (-15.56 = -15.88 +   0.32)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,071,781 – 10,071,935
Length 154
Sequences 5
Columns 154
Reading direction reverse
Mean pairwise identity 64.79
Shannon entropy 0.63748
G+C content 0.39310
Mean single sequence MFE -35.99
Consensus MFE -16.94
Energy contribution -16.78
Covariance contribution -0.16
Combinations/Pair 1.30
Mean z-score -1.41
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.35
SVM RNA-class probability 0.929962
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10071781 154 - 24543557
GACAAACAAAAAGGUGAAGUAGUUACUUAAAAAUAUUGCAGGCCACAAAGGUGUUGAAAUAGCGCCAUCUAGCGAUGUUUCACGGCAACAUCGAAGUUCCGUAUUCAACCGUGUAGAUGGCCUUAAAUACAUAUUCAAGUUAAAAAUAAUUCAA
(((........((((((.....)))))).....((((..(((((.....(((((((...)))))))((((((((.((..(.((((.(((......))))))))..))..))).))))))))))..)))).........)))............. ( -31.90, z-score =  -1.11, R)
>droAna3.scaffold_13337 14983157 133 - 23293914
------------AAUAAAUAAGACAUUUUAAAGGGAAAUUGUAUAUAUCGUAUUUGAGGAGUUGACAUCUAGCGGCAGAUUGUGGAAUCAAGAACUUUGCCACAUCCUGCGCAUAGGUGGCGCC-----AUGUCAAAAGGUGAAUAUCGU----
------------.........(((((.....................(((....)))((.((...(((((((((.(((..(((((..............)))))..)))))).)))))))).))-----)))))................---- ( -28.74, z-score =   0.18, R)
>droEre2.scaffold_4784 10051406 139 - 25762168
-------AAUAACCAAAAACAACUACUUAAAUAUUUUGCAGGCCACGAAGGUGGAGGAA-AGCGCCAUCUAGCGGUGUUUCACGGCAACACGGAAGUUCCUUAUUCAACCGUGUAGGUGGCC-------ACCGUUCAAACUCAAUUUAAUUCAA
-------...................((((((..((((..((((((....)))).....-.(.(((((((.((.(((...))).)).((((((..(.........)..))))))))))))))-------.))...))))....))))))..... ( -34.20, z-score =  -1.03, R)
>droSim1.chr3L 9451955 154 - 22553184
AAUAAACAAUAAUGUGAAGUAGUUACUUAAAAUUGCUGCAGGCCACAAAGGUGUUGGAAAAGCGCCAUCUAGCGAUGUUUCACGGCAACAGCGAAGUUCCGUGUUCAACCGUGUAGAUGGCCUUAAAUACCUUUACAGGUUAAAGGUAAUUCAA
................((((....))))..(((((((...((((..(((((((((....(((.(((((((((((.((...(((((.(((......))))))))..))..))).))))))))))).)))))))))...))))...)))))))... ( -45.10, z-score =  -2.70, R)
>droSec1.super_0 2287026 154 - 21120651
AAUAAAUAAAAAUGUGAAGUAGUUACUUAAAAUUGUUGCAGGCCACAAAGGUGUUGGAAAAGCGCCAUCUAGCGAUGUUUCACGGCAACAGCGAAGUUCCGUGUUCAACCGUGUAGAUGGCCUUAAAUACCUUUACAAGUUAAAGAUAAUUCAA
............(((((((..((.((........)).))(((((.....((((((.....))))))((((((((.((...(((((.(((......))))))))..))..))).)))))))))).......)))))))................. ( -40.00, z-score =  -2.36, R)
>consensus
_A_AAA_AAAAAUGUGAAGUAGUUACUUAAAAAUGUUGCAGGCCACAAAGGUGUUGGAAAAGCGCCAUCUAGCGAUGUUUCACGGCAACAGCGAAGUUCCGUAUUCAACCGUGUAGAUGGCCUUAAAUACCUUUACAAGUUAAAGAUAAUUCAA
.........................................(((.....)))........((.(((((((((((.......((((.(((......))))))).......))).))))))))))............................... (-16.94 = -16.78 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:14:58 2011