Locus 14292

Sequence ID dm3.chrX
Location 12,396,935 – 12,397,050
Length 115
Max. P 0.987874
window19677 window19678

overview

Window 7

Location 12,396,935 – 12,397,050
Length 115
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 72.87
Shannon entropy 0.46433
G+C content 0.41339
Mean single sequence MFE -26.26
Consensus MFE -16.31
Energy contribution -16.47
Covariance contribution 0.16
Combinations/Pair 1.06
Mean z-score -1.05
Structure conservation index 0.62
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.16
SVM RNA-class probability 0.571645
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12396935 115 + 22422827
UUCGUCAGUGUGAGAAAUGCCAGUUGGAGAUGGCCUUGUUGGCCAAGAUAAAACAGAGUUUCUCAUGGGAAGUUAAGUGUUCUAAACAAACAAAAAAAGUGUUUUUGCGAUAUUU--
.(((.(((.(((((((((....(((..(..(((((.....)))))...)..)))...))))))))).....(((.((....)).))).................)))))).....-- ( -24.40, z-score =  -0.40, R)
>droEre2.scaffold_4690 4286756 114 - 18748788
UUUGUCAGUGUGAGAAAUGUCAGCUGGAGAUGGCCUUGUUGGCCAAGAUAAA-CAGAGUUUCUGGUGGGAAGUUGAGAGUGCUCAAAAA--CAGGAAGGUGAUUGAGCUACGCUUAA
......((((((.....(.((((((.....(((((.....))))).......-(((.....)))......)))))).)..((((((..(--(......))..))))))))))))... ( -31.70, z-score =  -1.14, R)
>droYak2.chrX 6672880 115 + 21770863
UUUGUCAGUGUGAGAAAUGUCAGCUGGAGAUGGCCUUGUUGGCCAAGAUAAAACGGAGUUUCUGGUGGGAAGUAGGGAGGUCUCACAAA--CAGGAAGGUGUUUGAGUUAUGUUUAC
.((((...(((((((..(.((.(((.....(((((.....)))))........(((.....)))......))).)).)..))))))).)--)))(((.(((.......))).))).. ( -28.40, z-score =  -0.55, R)
>droSec1.super_21 153375 92 + 1102487
UUCGUCAGUGUGAGAAAUGUCAGUUGGAGAUGGCCUUGUUGGCCAAGAUAAAACAGAGUUUCUCAUGGGAAGUUAGUUGUUUUUCGAUAUUU-------------------------
...(((...(((((((((.((.(((..(..(((((.....)))))...)..))).))))))))))).(((((........))))))))....------------------------- ( -23.60, z-score =  -1.78, R)
>droSim1.chrX_random 3372263 92 + 5698898
UUCGUCAGUGUGAGAAAUGCCAGUUGGAGAUGGCCUUGUUGGCCAAGAUAAAACAGAGUUUCUCAUGGGAAGUUAGUUGUUUUUCGAUAUUU-------------------------
...(((...(((((((((....(((..(..(((((.....)))))...)..)))...))))))))).(((((........))))))))....------------------------- ( -23.20, z-score =  -1.38, R)
>consensus
UUCGUCAGUGUGAGAAAUGUCAGUUGGAGAUGGCCUUGUUGGCCAAGAUAAAACAGAGUUUCUCAUGGGAAGUUAGGUGUUCUCAAAAA__CA__AA_GUG_UU__G__A___UU__
....((..((((((((((............(((((.....)))))............)))))))))).))............................................... (-16.31 = -16.47 +   0.16)

alignment

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secondary structure

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dotplot

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Window 8

Location 12,396,935 – 12,397,050
Length 115
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 72.87
Shannon entropy 0.46433
G+C content 0.41339
Mean single sequence MFE -19.26
Consensus MFE -12.96
Energy contribution -13.60
Covariance contribution 0.64
Combinations/Pair 1.12
Mean z-score -2.06
Structure conservation index 0.67
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.30
SVM RNA-class probability 0.987874
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12396935 115 - 22422827
--AAAUAUCGCAAAAACACUUUUUUUGUUUGUUUAGAACACUUAACUUCCCAUGAGAAACUCUGUUUUAUCUUGGCCAACAAGGCCAUCUCCAACUGGCAUUUCUCACACUGACGAA
--.....(((((.............(((((.....)))))............(((((((..(((((......(((((.....))))).....))).))..)))))))...)).))). ( -21.20, z-score =  -1.80, R)
>droEre2.scaffold_4690 4286756 114 + 18748788
UUAAGCGUAGCUCAAUCACCUUCCUG--UUUUUGAGCACUCUCAACUUCCCACCAGAAACUCUG-UUUAUCUUGGCCAACAAGGCCAUCUCCAGCUGACAUUUCUCACACUGACAAA
...((.((.((((((..((......)--)..)))))).................(((((.((.(-((.....(((((.....))))).....))).))..))))).)).))...... ( -22.20, z-score =  -1.81, R)
>droYak2.chrX 6672880 115 - 21770863
GUAAACAUAACUCAAACACCUUCCUG--UUUGUGAGACCUCCCUACUUCCCACCAGAAACUCCGUUUUAUCUUGGCCAACAAGGCCAUCUCCAGCUGACAUUUCUCACACUGACAAA
........................((--(((((((((.........(((......)))..((.(((......(((((.....))))).....))).))....)))))))..)))).. ( -19.80, z-score =  -1.80, R)
>droSec1.super_21 153375 92 - 1102487
-------------------------AAAUAUCGAAAAACAACUAACUUCCCAUGAGAAACUCUGUUUUAUCUUGGCCAACAAGGCCAUCUCCAACUGACAUUUCUCACACUGACGAA
-------------------------...........................(((((((.((.(((......(((((.....))))).....))).))..))))))).......... ( -16.70, z-score =  -2.87, R)
>droSim1.chrX_random 3372263 92 - 5698898
-------------------------AAAUAUCGAAAAACAACUAACUUCCCAUGAGAAACUCUGUUUUAUCUUGGCCAACAAGGCCAUCUCCAACUGGCAUUUCUCACACUGACGAA
-------------------------...........................(((((((..(((((......(((((.....))))).....))).))..))))))).......... ( -16.40, z-score =  -2.04, R)
>consensus
__AA___U__C__AA_CAC_UU__UA__UUUCUAAGAACACCUAACUUCCCAUGAGAAACUCUGUUUUAUCUUGGCCAACAAGGCCAUCUCCAACUGACAUUUCUCACACUGACGAA
....................................................(((((((.((.(((......(((((.....))))).....))).))..))))))).......... (-12.96 = -13.60 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:37:29 2011