Locus 14357

Sequence ID dm3.chrX
Location 12,884,100 – 12,884,199
Length 99
Max. P 0.971688
window19764 window19765

overview

Window 4

Location 12,884,100 – 12,884,199
Length 99
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 69.21
Shannon entropy 0.50206
G+C content 0.36090
Mean single sequence MFE -22.78
Consensus MFE -11.55
Energy contribution -11.17
Covariance contribution -0.38
Combinations/Pair 1.33
Mean z-score -2.15
Structure conservation index 0.51
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.86
SVM RNA-class probability 0.971688
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12884100 99 + 22422827
CGGUUAAUGUUUAUUUGCCAGUUCAGGUAACUUUGUUUCGAAUUGGAAACAAUUUACCAACUCAUCGGAAACGGAAACAC-----GUCUCCGACAUUUCGCUUA--------------
.(((.(((....))).)))......(((((..(((((((......))))))).)))))......(((((.(((......)-----)).)))))...........-------------- ( -25.80, z-score =  -2.50, R)
>droEre2.scaffold_4690 4770361 99 - 18748788
CGGUUAAUGUUUCUCUGCCAGUCCAGGUAACUUUGUUUCGAAUUGGAAACAAUUUACCAACUCAUCGGAAACGGAAACAC-----GUCCCCGACAUUUCGCUUA--------------
(((....((((((............(((((..(((((((......))))))).))))).......((....)))))))).-----....)))............-------------- ( -24.30, z-score =  -1.56, R)
>droYak2.chrX 7154940 99 + 21770863
CGGUUAAUGUUUACUUGCCAGUUGAGGUAACUUUGUUUCGAAUUGGCAACAAUUUACCAACUCAUCGGAAACGGAAACAC-----GUCUCCGACAUUUCGCUUA--------------
.(((.(((......(((((((((((..((....))..)).)))))))))..))).)))......(((((.(((......)-----)).)))))...........-------------- ( -26.00, z-score =  -2.24, R)
>droSec1.super_21 626439 99 + 1102487
CGGUUAAUGUUUAUUUGCCAGUUCAGGUAACUUUGUUUCGAAUUGGAAACAAUUUACCAAUUCAUCGGAAACGGAAUCAC-----GUCUCCGACAUUUCGCUUA--------------
.(((.(((....))).)))......(((((..(((((((......))))))).)))))......(((((.(((......)-----)).)))))...........-------------- ( -25.80, z-score =  -2.59, R)
>dp4.chrXL_group3a 1171718 115 - 2690836
CAGUUAUAACUUAUAAGUUAUAACUUAUAACGCU-UUUCAAAUUA-AAAUAAUUUAGCUAUU-AUAGUCAACAAAAACGCUCAUUGUCUCAGCAGUUUAAUUUGGCUUAAAACCCCAU
.((((((((((....))))))))))......(((-....((((((-...)))))))))..((-(.((((((...(((((((.........))).))))...)))))))))........ ( -17.40, z-score =  -2.00, R)
>droPer1.super_52 298896 115 + 549863
CAGUUAUAACUUAUAAGUUAUAACUUAUAACGCU-UUUCAAAUUA-AAAUAAUUUAGCUAUU-AUAGUCAACAAAAACGCUCAUUGUCUCAGCAGUUUAAUUUGGCUUAAAACCCCAU
.((((((((((....))))))))))......(((-....((((((-...)))))))))..((-(.((((((...(((((((.........))).))))...)))))))))........ ( -17.40, z-score =  -2.00, R)
>consensus
CGGUUAAUGUUUAUUUGCCAGUUCAGGUAACUUUGUUUCGAAUUGGAAACAAUUUACCAACUCAUCGGAAACGGAAACAC_____GUCUCCGACAUUUCGCUUA______________
(((.......(((((((......)))))))...((((((((((((....))))))..........((....))))))))..........))).......................... (-11.55 = -11.17 +  -0.38)

alignment

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secondary structure

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dotplot

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Window 5

Location 12,884,100 – 12,884,199
Length 99
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 69.21
Shannon entropy 0.50206
G+C content 0.36090
Mean single sequence MFE -26.60
Consensus MFE -8.48
Energy contribution -8.70
Covariance contribution 0.22
Combinations/Pair 1.32
Mean z-score -2.43
Structure conservation index 0.32
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.54
SVM RNA-class probability 0.735957
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 12884100 99 - 22422827
--------------UAAGCGAAAUGUCGGAGAC-----GUGUUUCCGUUUCCGAUGAGUUGGUAAAUUGUUUCCAAUUCGAAACAAAGUUACCUGAACUGGCAAAUAAACAUUAACCG
--------------...((.....(((((((((-----(......)))))))))).(((((((((.(((((((......)))))))..)))))..)))).))................ ( -28.80, z-score =  -3.38, R)
>droEre2.scaffold_4690 4770361 99 + 18748788
--------------UAAGCGAAAUGUCGGGGAC-----GUGUUUCCGUUUCCGAUGAGUUGGUAAAUUGUUUCCAAUUCGAAACAAAGUUACCUGGACUGGCAGAGAAACAUUAACCG
--------------...((.....(((((..((-----(......)))..))))).(((((((((.(((((((......)))))))..)))))..)))).))................ ( -28.40, z-score =  -1.84, R)
>droYak2.chrX 7154940 99 - 21770863
--------------UAAGCGAAAUGUCGGAGAC-----GUGUUUCCGUUUCCGAUGAGUUGGUAAAUUGUUGCCAAUUCGAAACAAAGUUACCUCAACUGGCAAGUAAACAUUAACCG
--------------...((.....(((((((((-----(......))))))))))((((((((((....)))))))))).....................))................ ( -28.30, z-score =  -2.89, R)
>droSec1.super_21 626439 99 - 1102487
--------------UAAGCGAAAUGUCGGAGAC-----GUGAUUCCGUUUCCGAUGAAUUGGUAAAUUGUUUCCAAUUCGAAACAAAGUUACCUGAACUGGCAAAUAAACAUUAACCG
--------------...((.....(((((((((-----(......)))))))))).....(((((.(((((((......)))))))..))))).......))................ ( -27.50, z-score =  -3.34, R)
>dp4.chrXL_group3a 1171718 115 + 2690836
AUGGGGUUUUAAGCCAAAUUAAACUGCUGAGACAAUGAGCGUUUUUGUUGACUAU-AAUAGCUAAAUUAUUU-UAAUUUGAAA-AGCGUUAUAAGUUAUAACUUAUAAGUUAUAACUG
((((.(((((....(((((((((..(((.(.....).)))(((.((((.....))-)).)))........))-))))))).))-))).)))).((((((((((....)))))))))). ( -23.30, z-score =  -1.57, R)
>droPer1.super_52 298896 115 - 549863
AUGGGGUUUUAAGCCAAAUUAAACUGCUGAGACAAUGAGCGUUUUUGUUGACUAU-AAUAGCUAAAUUAUUU-UAAUUUGAAA-AGCGUUAUAAGUUAUAACUUAUAAGUUAUAACUG
((((.(((((....(((((((((..(((.(.....).)))(((.((((.....))-)).)))........))-))))))).))-))).)))).((((((((((....)))))))))). ( -23.30, z-score =  -1.57, R)
>consensus
______________UAAGCGAAAUGUCGGAGAC_____GUGUUUCCGUUUCCGAUGAAUUGGUAAAUUGUUUCCAAUUCGAAACAAAGUUACCUGAACUGGCAAAUAAACAUUAACCG
..........................(((((((.......))))))).......((((((((..........)))))))).......((((.......))))................ ( -8.48 =  -8.70 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:38:40 2011