Locus 14029

Sequence ID dm3.chrX
Location 10,702,068 – 10,702,187
Length 119
Max. P 0.771079
window19295 window19296

overview

Window 5

Location 10,702,068 – 10,702,169
Length 101
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 62.46
Shannon entropy 0.65299
G+C content 0.56164
Mean single sequence MFE -30.08
Consensus MFE -14.10
Energy contribution -15.18
Covariance contribution 1.08
Combinations/Pair 1.24
Mean z-score -0.99
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.64
SVM RNA-class probability 0.771079
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10702068 101 - 22422827
--AUCCCCGUGAUCGUGGCGUGU-UCUUCGACACGCAGGUA-GGACCUCGAAAUUAGCUGAUAGGGUCCUGUUCCCGAUCUCGAUCCCGAUCCGAUCCUGUCCUC--------------
--.....((.(((((.(((((((-(....))))))).((((-((((((...............))))))))...))...).))))).))................-------------- ( -29.66, z-score =  -0.14, R)
>droSim1.chrX 8320767 101 - 17042790
--AUCCCCGUGAUCGUGGCGUGU-UCUUCGACACGCAGGUA-GGACCUCGAAAUUAGCUGAUAGGGUCCUGUUCCCGAUCUCGAUCCCGAUCCGAUCCUGUCCUC--------------
--.....((.(((((.(((((((-(....))))))).((((-((((((...............))))))))...))...).))))).))................-------------- ( -29.66, z-score =  -0.14, R)
>droYak2.chrX 19272456 115 - 21770863
--AUCCCCGUGAUCGUGGCGUGU-UCUUCGACACGCAGGUA-GGACCUCGAAAUUGGCUGAUAGGGUCCUGUUCCUGAUCUCGAUCUCGAUCCCGAUCCGCCAUCCCGAUCCUGUCCUC
--...............((((((-(....)))))))(((((-(((..(((....((((.(((.(((((..(.((........)).)..)).))).))).))))...)))))))).))). ( -35.20, z-score =  -0.22, R)
>droAna3.scaffold_13417 1298821 115 - 6960332
UGCUCACUGCGAUCCUUGCGUGU-UC--CGACACGCAGGUA-GGGCCCCGAAAUUACCUGAUAGCGUCUCGUACUCUGUCCUGUGCCCUAUCCCUAUCCCUAUCGCUAUCCCUGUCCCG
........(((((...(((((((-..--..)))))))((((-((((.........((..(((((.((.....)).)))))..)))))))))).........)))))............. ( -31.80, z-score =  -3.04, R)
>dp4.chrXL_group1e 4919806 79 + 12523060
-----------GUCCUUGCGUGUGUUCUCGACACGCAGGUAGGGGCAUAGAAAUUAAGUGA------CCCGCAAC--AACAAGGACUCGACUCUCUCC---------------------
-----------(((((((.(((((((...)))))))..((.(((((((.........))).------))).).))--..)))))))............--------------------- ( -24.10, z-score =  -1.39, R)
>consensus
__AUCCCCGUGAUCGUGGCGUGU_UCUUCGACACGCAGGUA_GGACCUCGAAAUUAGCUGAUAGGGUCCUGUUCCCGAUCUCGAUCCCGAUCCCAUCCCGUCCUC______________
..........(((((..((((((.......))))))......((((((...............))))))..................)))))........................... (-14.10 = -15.18 +   1.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,702,092 – 10,702,187
Length 95
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 79.35
Shannon entropy 0.32572
G+C content 0.55793
Mean single sequence MFE -33.80
Consensus MFE -23.52
Energy contribution -23.60
Covariance contribution 0.08
Combinations/Pair 1.23
Mean z-score -1.64
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.52
SVM RNA-class probability 0.728369
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 10702092 95 - 22422827
----------------------UUCCCGCUGAUCUUCGA--GAUCCCCGUGAUCGUGGCGUGUUCUUCGACACGCAGGUAGGACCUCGAAAUUAGCUGAUAGGGUCCUGUUCCCGAUCU
----------------------.....((((((.(((((--(.(((.....(((...(((((((....))))))).))).))).)))))))))))).(((.(((.......))).))). ( -35.00, z-score =  -2.27, R)
>droSim1.chrX 8320791 95 - 17042790
----------------------UUCCCGCUGAUCUUCGA--GAUCCCCGUGAUCGUGGCGUGUUCUUCGACACGCAGGUAGGACCUCGAAAUUAGCUGAUAGGGUCCUGUUCCCGAUCU
----------------------.....((((((.(((((--(.(((.....(((...(((((((....))))))).))).))).)))))))))))).(((.(((.......))).))). ( -35.00, z-score =  -2.27, R)
>droYak2.chrX 19272494 95 - 21770863
----------------------UUCCCGCUGAUCUUUAA--GAUCCCCGUGAUCGUGGCGUGUUCUUCGACACGCAGGUAGGACCUCGAAAUUGGCUGAUAGGGUCCUGUUCCUGAUCU
----------------------....((..((((.....--))))..)).((((...(((((((....)))))))(((((((((((...............))))))))..))))))). ( -30.36, z-score =  -1.18, R)
>droEre2.scaffold_4690 14320605 94 + 18748788
----------------------UUCCCGCUGAUCUUCAA--GAUCCCCGUGAUCGUGGCGUGUUCUUCGACACGCAGGUAGGACCUCGAAAUUGGCUGAUAGGGUCCUG-UCCCGAUCU
----------------------....((..((((.....--))))..)).(((((..(((((((....))))))).((((((((((...............))))))))-.))))))). ( -32.36, z-score =  -1.39, R)
>droAna3.scaffold_13417 1298859 117 - 6960332
CCGCCGCCGAGUGUCCGUGGUGUCCCCUAUGAUCCCCGAGUGCUCACUGCGAUCCUUGCGUGUUC--CGACACGCAGGUAGGGCCCCGAAAUUACCUGAUAGCGUCUCGUACUCUGUCC
.((..((((((((..((.((..((......))..))))..))))).........(((((((((..--..)))))))))...)))..)).........(((((.((.....)).))))). ( -36.30, z-score =  -1.10, R)
>consensus
______________________UUCCCGCUGAUCUUCGA__GAUCCCCGUGAUCGUGGCGUGUUCUUCGACACGCAGGUAGGACCUCGAAAUUAGCUGAUAGGGUCCUGUUCCCGAUCU
..............................((((.......)))).....(((((..(((((((....))))))).((((((((((...............))))))))..))))))). (-23.52 = -23.60 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:32:18 2011