Locus 7226

Sequence ID dm3.chr3L
Location 13,157,750 – 13,157,853
Length 103
Max. P 0.923654
window9948 window9949

overview

Window 8

Location 13,157,750 – 13,157,853
Length 103
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 81.49
Shannon entropy 0.24898
G+C content 0.38442
Mean single sequence MFE -19.69
Consensus MFE -17.51
Energy contribution -17.63
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -0.96
Structure conservation index 0.89
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.09
SVM RNA-class probability 0.540940
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13157750 103 + 24543557
AUGCCAAUCGAGUGAAGCUUUCAUCCGUUUUCCGUUUGCUAUUCACUCGGCCCCCAAAAAAGAAC--------AAAAAAAAUUAAACAAAAAGGAGUUGACAAAAAAAAAA-----
.((.((((((((((((.....((..((.....))..))...))))))))....((..........--------...................)).)))).)).........----- ( -13.65, z-score =   0.05, R)
>droYak2.chr3L 13243897 107 + 24197627
AUGCCAAUCGAGUGAAGUUUUCAUCCGUUUUCCGUUUGCUAUUCACUCGGCCCCCCAAAAAAGAGCAGAAAAAAAUAAAAAUAAAACAAAAGGGAGUCGGCAAAAAA---------
.((((....(((((((.....((..((.....))..))...)))))))(((.(((....................................))).))))))).....--------- ( -23.52, z-score =  -2.09, R)
>droEre2.scaffold_4784 13166323 107 + 25762168
AUGCCAAUCGAGUGAAGUUUUCAUCCGUUUUCCGUUUGCUAUUCACUCGGCCCCCCGAAAAAGA---------GCAAAAAAUAAAACAAAAAGGAGUCGGCAAAAAAAAGAAGGCC
.((((..(((..(((.....)))..)(((((...((((((......((((....)))).....)---------)))))....)))))......))...)))).............. ( -21.90, z-score =  -0.83, R)
>consensus
AUGCCAAUCGAGUGAAGUUUUCAUCCGUUUUCCGUUUGCUAUUCACUCGGCCCCCCAAAAAAGA_________AAAAAAAAUAAAACAAAAAGGAGUCGGCAAAAAAAA_A_____
.((((....(((((((.....((..((.....))..))...)))))))(((.((......................................)).))))))).............. (-17.51 = -17.63 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 13,157,750 – 13,157,853
Length 103
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 81.49
Shannon entropy 0.24898
G+C content 0.38442
Mean single sequence MFE -26.33
Consensus MFE -25.05
Energy contribution -24.39
Covariance contribution -0.66
Combinations/Pair 1.13
Mean z-score -1.40
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.30
SVM RNA-class probability 0.923654
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 13157750 103 - 24543557
-----UUUUUUUUUUGUCAACUCCUUUUUGUUUAAUUUUUUUU--------GUUCUUUUUUGGGGGCCGAGUGAAUAGCAAACGGAAAACGGAUGAAAGCUUCACUCGAUUGGCAU
-----.........(((((((((((....(..(((......))--------)..)......))))).((((((((...((..((.....))..)).....)))))))).)))))). ( -24.00, z-score =  -1.29, R)
>droYak2.chr3L 13243897 107 - 24197627
---------UUUUUUGCCGACUCCCUUUUGUUUUAUUUUUAUUUUUUUCUGCUCUUUUUUGGGGGGCCGAGUGAAUAGCAAACGGAAAACGGAUGAAAACUUCACUCGAUUGGCAU
---------.....((((((((((((..................................)))))).((((((((...((..((.....))..)).....)))))))).)))))). ( -27.88, z-score =  -2.02, R)
>droEre2.scaffold_4784 13166323 107 - 25762168
GGCCUUCUUUUUUUUGCCGACUCCUUUUUGUUUUAUUUUUUGC---------UCUUUUUCGGGGGGCCGAGUGAAUAGCAAACGGAAAACGGAUGAAAACUUCACUCGAUUGGCAU
..............((((((.....................((---------((((.....))))))((((((((...((..((.....))..)).....)))))))).)))))). ( -27.10, z-score =  -0.88, R)
>consensus
_____U_UUUUUUUUGCCGACUCCUUUUUGUUUUAUUUUUUUU_________UCUUUUUUGGGGGGCCGAGUGAAUAGCAAACGGAAAACGGAUGAAAACUUCACUCGAUUGGCAU
..............(((((((((((....................................))))).((((((((...((..((.....))..)).....)))))))).)))))). (-25.05 = -24.39 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:22:54 2011