Locus 15600

Sequence ID dm3.chrX
Location 19,886,735 – 19,886,842
Length 107
Max. P 0.999662
window21511 window21512

overview

Window 1

Location 19,886,735 – 19,886,842
Length 107
Sequences 7
Columns 121
Reading direction forward
Mean pairwise identity 73.21
Shannon entropy 0.50880
G+C content 0.43702
Mean single sequence MFE -29.57
Consensus MFE -20.00
Energy contribution -20.19
Covariance contribution 0.18
Combinations/Pair 1.05
Mean z-score -2.38
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.14
SVM RNA-class probability 0.997621
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19886735 107 + 22422827
ACUUGCUCGUGCGCUAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUAAGUGCUGUCAAAUGGGUUCUUCCCUGUUCUGU-UCCGUUUCGAUCCGCACUGUAG-------------
...(((..(((((.(((((......)))))....(((((.(((......))).))))).((((((((((................-))))))).))).))))).))).------------- ( -23.79, z-score =  -1.37, R)
>droSim1.chrX 15302549 107 + 17042790
ACUUGCUCGUGCGCUAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUUCUGCCCUGUUCUGU-UCCGUUUCGAUCCGCACUGGAG-------------
.....((.(((((.(((((......)))))....(((((((((......))))))))).((((((((((................-))))))).))).))))).))..------------- ( -29.99, z-score =  -2.13, R)
>droSec1.super_8 2117754 107 + 3762037
ACUUGCUCGUGCGCUAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUUCUGCCCUGUUCUGU-UCCGUUUCGAUCCGCACUGGAG-------------
.....((.(((((.(((((......)))))....(((((((((......))))))))).((((((((((................-))))))).))).))))).))..------------- ( -29.99, z-score =  -2.13, R)
>droYak2.chrX 10233868 90 - 21770863
ACUUGCUCGUGCGCUAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUUCUGUUCC--CCCGU-UCUGUUC----------------------------
....((....))..(((((......)))))....(((((((((......))))))))).....((((((.........--)))))-)......---------------------------- ( -22.80, z-score =  -2.33, R)
>dp4.chrXL_group1e 7332204 102 + 12523060
GCUUACUCGUGCGCUAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUUUCGCCCAUGUGUGUGUGCACGUGUACGAGUG-------------------
...((((((((((((((((......)))))....(((((((((......)))))))))......(((((.....)))))((((....)))))))))))))))------------------- ( -42.50, z-score =  -5.33, R)
>droVir3.scaffold_12970 10030647 81 + 11907090
ACUUACUCGUGCGCCAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUCUAAGCGGAAC----------------------------------------
......((((..(((((((......)))).....(((((((((......))))))))).........)))....))))...---------------------------------------- ( -21.70, z-score =  -2.16, R)
>droGri2.scaffold_14853 7312160 119 - 10151454
ACUUACUCGUGCGCCAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUCUG-GCAGGCUGUGGAUGUGGGU-UGAGGGUGUGGUUAGGCUGUGUGGUGU
..........(((((((((......)))).(((((((((((((......))))))))).........((((((-(((.(((.(.(((....))-).).))).).))))))))))))))))) ( -36.20, z-score =  -1.24, R)
>consensus
ACUUGCUCGUGCGCUAACUGAUUAAAGUUAAUAUGCACUCAUAUUGGAUUAUGAGUGCUGUCAAAUGGGUUCUGCCCUGUUCUGU_UCCGUUU_GAUCCGCA__G________________
....((((((..(((((((......)))))....(((((((((......))))))))).))...))))))................................................... (-20.00 = -20.19 +   0.18)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,886,735 – 19,886,842
Length 107
Sequences 7
Columns 121
Reading direction reverse
Mean pairwise identity 73.21
Shannon entropy 0.50880
G+C content 0.43702
Mean single sequence MFE -26.31
Consensus MFE -16.51
Energy contribution -15.94
Covariance contribution -0.57
Combinations/Pair 1.19
Mean z-score -3.34
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.15
SVM RNA-class probability 0.999662
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19886735 107 - 22422827
-------------CUACAGUGCGGAUCGAAACGGA-ACAGAACAGGGAAGAACCCAUUUGACAGCACUUAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUAGCGCACGAGCAAGU
-------------.....(((((..(((((..(..-......).(((.....))).)))))..(((((((((......)))))))))...((((((......)))))))))))........ ( -27.00, z-score =  -3.08, R)
>droSim1.chrX 15302549 107 - 17042790
-------------CUCCAGUGCGGAUCGAAACGGA-ACAGAACAGGGCAGAACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUAGCGCACGAGCAAGU
-------------(((..(((((..(((((..(..-......).(((.....))).)))))..(((((((((......)))))))))...((((((......))))))))))))))..... ( -29.40, z-score =  -3.11, R)
>droSec1.super_8 2117754 107 - 3762037
-------------CUCCAGUGCGGAUCGAAACGGA-ACAGAACAGGGCAGAACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUAGCGCACGAGCAAGU
-------------(((..(((((..(((((..(..-......).(((.....))).)))))..(((((((((......)))))))))...((((((......))))))))))))))..... ( -29.40, z-score =  -3.11, R)
>droYak2.chrX 10233868 90 + 21770863
----------------------------GAACAGA-ACGGG--GGAACAGAACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUAGCGCACGAGCAAGU
----------------------------...((((-...((--(........))).))))...(((((((((......)))))))))....(((((......)))))((......)).... ( -24.00, z-score =  -3.83, R)
>dp4.chrXL_group1e 7332204 102 - 12523060
-------------------CACUCGUACACGUGCACACACACAUGGGCGAAACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUAGCGCACGAGUAAGC
-------------------.((((((....((((.....((.(((((.....))))).))...(((((((((......)))))))))....(((((......))))))))))))))).... ( -34.40, z-score =  -5.63, R)
>droVir3.scaffold_12970 10030647 81 - 11907090
----------------------------------------GUUCCGCUUAGACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUGGCGCACGAGUAAGU
----------------------------------------((..(((................(((((((((......)))))))))....(((((......)))))))).))........ ( -18.50, z-score =  -2.16, R)
>droGri2.scaffold_14853 7312160 119 + 10151454
ACACCACACAGCCUAACCACACCCUCA-ACCCACAUCCACAGCCUGC-CAGACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUGGCGCACGAGUAAGU
..........(((((((..........-................((.-((((....)))).))(((((((((......)))))))))................))))).)).......... ( -21.50, z-score =  -2.46, R)
>consensus
________________C__UGCGGAUC_AAACGGA_ACAGAACAGGGCAGAACCCAUUUGACAGCACUCAUAAUCCAAUAUGAGUGCAUAUUAACUUUAAUCAGUUAGCGCACGAGCAAGU
...............................................................(((((((((......)))))))))....(((((......)))))((......)).... (-16.51 = -15.94 +  -0.57)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:02:31 2011