Locus 6855

Sequence ID dm3.chr3L
Location 10,285,553 – 10,285,682
Length 129
Max. P 0.885422
window9427 window9428

overview

Window 7

Location 10,285,553 – 10,285,647
Length 94
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 74.10
Shannon entropy 0.47098
G+C content 0.46917
Mean single sequence MFE -28.30
Consensus MFE -14.98
Energy contribution -15.02
Covariance contribution 0.04
Combinations/Pair 1.38
Mean z-score -1.81
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.07
SVM RNA-class probability 0.885422
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10285553 94 - 24543557
-CAGCCAUGGAAAAGGGUCAGUUU--UCGGGUUUGUCCACUGCUGAUCCUUUUGUCAAUUGCC-CUGGCUUUUCGAGAGUUU-UCCUUUCUCCUUCUGG--
-.(((((.((((((((((((((..--...((.....))...))))))))))))........))-.)))))....(((((...-....))))).......-- ( -28.70, z-score =  -1.90, R)
>droEre2.scaffold_4784 10278761 92 - 25762168
-CAGCCAUGGAAAAGGGUCAGUUU--UUGGGUCUGUCCAUUGCUGAUCCUUUUGUCAAUUGCC-UUGG--CAUCGAGAUUUG-UGCGUUCUCUUUCUGG--
-..((((.((((((((((((((..--.((((....))))..))))))))))))........))-.)))--)...((((....-.....)))).......-- ( -30.30, z-score =  -2.56, R)
>droYak2.chr3L 10274013 93 - 24197627
-CAGCCAUGGAAAAGGGUCAGUUU--UUGGGUCUGUCCAUUGCUGAUCCUUUUGUCAAUUGCCGCUGG--AAUCGAGAUUUU-UUCGUUCUCUUUCUGG--
-..((..(((((((((((((((..--.((((....))))..)))))))))))).)))...))..(..(--((..((((....-.....)))).)))..)-- ( -28.80, z-score =  -2.24, R)
>droSec1.super_0 2499623 93 - 21120651
-CAGCCAUGGAAAAGGGUCAGUUU--UCGGGUCUGUCCACUGCUGAUCCUUUUGUCAAUUGCC-CUGG--AAUCGAGAUUUUGCUCGUUCUCCUUCUGG--
-(((...(((((((((((((((..--...((.....))...)))))))))))).)))......-..((--(..((((......))))...)))..))).-- ( -27.60, z-score =  -1.29, R)
>droSim1.chr3L 9675108 93 - 22553184
-CAGCCAUGGAAAAGGGUCAGUUU--UCGGGUCUGUCCACUGCUGAUCCUUUUGUCAAUUGCC-CUGG--AAUCGAGAUUUUUCUCGUUCUCCUUCUGG--
-(((...(((((((((((((((..--...((.....))...)))))))))))).)))......-..((--(..(((((....)))))...)))..))).-- ( -29.60, z-score =  -2.24, R)
>droMoj3.scaffold_6680 4056451 98 + 24764193
UUAAGCG-AAAGAAAGGUCAGUUCGGACUCAGUUGCCUUCCUUUGUGUUGACUGUCAAUUGG--ACAGCUUUUAGCCUGCCUUUUGGUCGUUUCUCUGUAU
..(((((-(..((((((.(((...((.(......))).........((((((((((.....)--))))...))))))))))))))..))))))........ ( -24.80, z-score =  -0.62, R)
>consensus
_CAGCCAUGGAAAAGGGUCAGUUU__UCGGGUCUGUCCACUGCUGAUCCUUUUGUCAAUUGCC_CUGG__AAUCGAGAUUUU_UUCGUUCUCCUUCUGG__
....((((((((((((((((((.......((.....))...)))))))))))).))).................((((..........))))....))).. (-14.98 = -15.02 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,285,577 – 10,285,682
Length 105
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 92.47
Shannon entropy 0.12604
G+C content 0.47997
Mean single sequence MFE -35.36
Consensus MFE -27.88
Energy contribution -27.84
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -2.29
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.84
SVM RNA-class probability 0.832620
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 10285577 105 - 24543557
CGGUUGCACUCGAAUGAAUUUCAUUUGCGAACUGG-----CAGCCAUGGAAAAGGGUCAGUUUUCGGGUUUGUCCACUGCUGAUCCUUUUGUCAAUUGCC-CUGGCUUUUC
.((((((.(.((((((.....)))))).).....)-----))))).(((((((((((((((.....((.....))...)))))))))))).)))...((.-...))..... ( -35.00, z-score =  -2.28, R)
>droEre2.scaffold_4784 10278785 103 - 25762168
CGGUUGCACUCGAAUGAAUUUCAUUUGCGAACUGG-----CAGCCAUGGAAAAGGGUCAGUUUUUGGGUCUGUCCAUUGCUGAUCCUUUUGUCAAUUGCC-UUGGCAUC--
.((((((.(.((((((.....)))))).).....)-----))))).(((((((((((((((...((((....))))..)))))))))))).)))..(((.-...)))..-- ( -38.60, z-score =  -3.53, R)
>droYak2.chr3L 10274037 109 - 24197627
CGGUUGCACUCGAAUGAAUUUCAUUUGCGAACCGAACUGCCAGCCAUGGAAAAGGGUCAGUUUUUGGGUCUGUCCAUUGCUGAUCCUUUUGUCAAUUGCCGCUGGAAUC--
((((((((...(((.....)))...))).))))).....((((((((((((((((((((((...((((....))))..)))))))))))).)))..))..)))))....-- ( -38.10, z-score =  -2.74, R)
>droSec1.super_0 2499648 103 - 21120651
CGGUUGCACUCGAAUGAAUUUCAUUUGCGAACCAG-----CAGCCAUGGAAAAGGGUCAGUUUUCGGGUCUGUCCACUGCUGAUCCUUUUGUCAAUUGCC-CUGGAAUC--
.((((((.(.((((((.....)))))).).....)-----))))).(((((((((((((((.....((.....))...)))))))))))).)))......-........-- ( -32.00, z-score =  -1.39, R)
>droSim1.chr3L 9675133 103 - 22553184
CGGUUGCACUCGAAUGAAUUUCAUUUGCGAACCGG-----CAGCCAUGGAAAAGGGUCAGUUUUCGGGUCUGUCCACUGCUGAUCCUUUUGUCAAUUGCC-CUGGAAUC--
.((((((.(.((((((.....)))))).).....)-----))))).(((((((((((((((.....((.....))...)))))))))))).)))......-........-- ( -33.10, z-score =  -1.50, R)
>consensus
CGGUUGCACUCGAAUGAAUUUCAUUUGCGAACCGG_____CAGCCAUGGAAAAGGGUCAGUUUUCGGGUCUGUCCACUGCUGAUCCUUUUGUCAAUUGCC_CUGGAAUC__
((((((((...(((.....)))...))).)))))........((..(((((((((((((((.....((.....))...)))))))))))).)))...))............ (-27.88 = -27.84 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:15:42 2011