Locus 14586

Sequence ID dm3.chrX
Location 14,245,736 – 14,245,846
Length 110
Max. P 0.683165
window20081 window20082

overview

Window 1

Location 14,245,736 – 14,245,833
Length 97
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 71.51
Shannon entropy 0.49140
G+C content 0.59135
Mean single sequence MFE -40.76
Consensus MFE -19.50
Energy contribution -21.14
Covariance contribution 1.64
Combinations/Pair 1.24
Mean z-score -1.59
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.41
SVM RNA-class probability 0.683165
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14245736 97 + 22422827
----------AGAUGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCCGCAGGACACCCCUGCACAUCCUGCA-UGCAUCCUGGCCGUCC---------UGGCCACUUUUCCAG
----------.((...((..((((((((.((.((((((((((((....)))(((((.....))))).......)))-)))))))).))))...---------))))..))..))... ( -37.70, z-score =  -1.04, R)
>droSec1.super_20 848426 106 + 1148123
----------AGAUGCAUGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCA-UGCAUCCUGGCCGUCCCGGCCAUCCUGGCCACUUUUCCAG
----------....((....)).(((((.((.((((((((..(...(((.((((((.....))))))))).)..))-))))))))(((((...)))))......)))))........ ( -45.60, z-score =  -2.69, R)
>droYak2.chrX 8488401 106 + 21770863
----------AGAUGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCA-UGCAUCCUGGCCGUCCUGCUCGUCCUGGCCACUUUUCCAG
----------.((.(((((.((...(((.((.((((((((..(...(((.((((((.....))))))))).)..))-)))))))).))))))))))))...((((........)))) ( -45.80, z-score =  -2.57, R)
>droEre2.scaffold_4690 6051609 88 - 18748788
----------AGAUGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUCCAGGACACCCCUGCACAUCCUGCA-UGCAUCCUGGCC------------------ACUUUUCCAG
----------.......((....(((((.((.((((((((..(...(((...((((.....))))..))).)..))-)))))))).)))------------------))....)).. ( -33.60, z-score =  -1.55, R)
>droAna3.scaffold_13248 1939410 114 + 4840945
GGCUGAAGGGGCAGGCAGGUGGCGUGGCAAGUGAUGCGUGCGGUAAGCGCCACCAUCCUGGCC-ACUUUUGUUGCAAUGUCCGCUGUCUGUGAUGGCGUUUUGGUUUUUUUUUCC--
(((..(((.(.((.(((((..(((.((((((.((((.(((((.....)).))))))))).((.-((....)).))..)))))))..)))))..)).).)))..))).........-- ( -41.10, z-score =  -0.13, R)
>consensus
__________AGAUGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCA_UGCAUCCUGGCCGUCC_G____U__UGGCCACUUUUCCAG
.........................(((.((.(((((((((((...(((.((((((.....))))))))).))))).)))))))).)))............................ (-19.50 = -21.14 +   1.64)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,245,739 – 14,245,846
Length 107
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 88.50
Shannon entropy 0.18575
G+C content 0.57845
Mean single sequence MFE -42.88
Consensus MFE -32.72
Energy contribution -34.98
Covariance contribution 2.25
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.76
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.24
SVM RNA-class probability 0.606348
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14245739 107 + 22422827
UGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCCGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUC---------CUGGCCACUUUUCCAGCACUGUUCGUUUA
.((((((((....))((((((((((((((((....)))(((((.....))))).......)))))))))..((((...---------..)))))))).....)).))))....... ( -41.80, z-score =  -1.32, R)
>droSec1.super_20 848429 116 + 1148123
UGCAUGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUCCCGGCCAUCCUGGCCACUUUUCCAGAACUGUUCGUUUA
.((....)).(((((.((.((((((((..(...(((.((((((.....))))))))).)..))))))))))(((((...)))))......))))).......((((.....)))). ( -46.30, z-score =  -2.47, R)
>droYak2.chrX 8488404 116 + 21770863
UGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUCCUGCUCGUCCUGGCCACUUUUCCAGCACUGUUCGUUUA
.(((((.((...(((.((.((((((((..(...(((.((((((.....))))))))).)..)))))))))).))))))))))..((.((((........)))).)).......... ( -46.70, z-score =  -2.04, R)
>droEre2.scaffold_4690 6051612 98 - 18748788
UGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUCCAGGACACCCCUGCACAUCCUGCAUGCAUC------------------CUGGCCACUUUUCCAGCACUGUUCGUUUA
.((((((...(((((.((.((((((((..(...(((...((((.....))))..))).)..))))))))------------------)).))))).......)).))))....... ( -36.70, z-score =  -1.63, R)
>consensus
UGCAGGCGCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUC_________CUGGCCACUUUUCCAGCACUGUUCGUUUA
.((((((((....))((((((((((((..(...(((.((((((.....))))))))).)..))))))))..(((((............))))))))).....)).))))....... (-32.72 = -34.98 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:42:55 2011