Locus 8264

Sequence ID dm3.chr3L
Location 21,474,995 – 21,475,085
Length 90
Max. P 0.899500
window11351 window11352

overview

Window 1

Location 21,474,995 – 21,475,085
Length 90
Sequences 9
Columns 101
Reading direction forward
Mean pairwise identity 78.56
Shannon entropy 0.42166
G+C content 0.46670
Mean single sequence MFE -26.34
Consensus MFE -16.70
Energy contribution -17.04
Covariance contribution 0.35
Combinations/Pair 1.06
Mean z-score -1.47
Structure conservation index 0.63
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.63
SVM RNA-class probability 0.769217
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21474995 90 + 24543557
----UGUGGUUUUUCGGUUCUUGUGCAGUUCAAUUCGAGGCG--GAACGAAACGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUUC-----
----....................((((..(((((..(((((--(..(((((((..(....)..)))))))....))))))..)))))..))))..----- ( -25.80, z-score =  -0.93, R)
>droGri2.scaffold_15110 5524778 73 + 24565398
---------------------CUCUCGGUUCGAUUCGCAACG--GAAUGAAAAGGACAAUUGCAUGUUUUGAUUGCCGACUGCAAUUGUCCUGCCA-----
---------------------.....((((((.((((...))--)).)))..((((((((((((.(((.........)))))))))))))))))).----- ( -23.70, z-score =  -2.63, R)
>droVir3.scaffold_13049 17881976 79 - 25233164
------------CUUUCGGUUCUCUCGGUUCGAUUCGCAACG--GAACGAAAAGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUG--------
------------.(((((.((((..(((......)))....)--))))))))((((((((((((.((..........)).)))))))))))).-------- ( -24.80, z-score =  -2.36, R)
>droWil1.scaffold_180698 2336264 96 + 11422946
UUCGGUUUGGUUUUGGUUUGGUUUUCGGUUCGAUUUUCAAUGCCGAACGAAACGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUGC-----
((((.((((((.((((.((((........))))...)))).))))))))))..(((((((((((.((..........)).))))))))))).....----- ( -30.60, z-score =  -2.14, R)
>droAna3.scaffold_13337 19918314 94 + 23293914
-----UUCGGUUUUCGUUUCGCUUACAGUUCGAUGUGAGGCG--GAACGAAACGGACAAUUGGUUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUUCGGCAG
-----.((((.((((((((((((((((......))))).)))--)))))))).(((((((((((.((.......)).)))...))))))))...))))... ( -33.20, z-score =  -2.36, R)
>droEre2.scaffold_4784 21133023 89 + 25762168
----UG-GGUUUUUCGGUUCUUGUGCAGUUCAAUUCGAAGCG--GAACGAAACGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUUC-----
----.(-..(((((((.(((..((........))..))).))--))).))..)(((((((((((.((..........)).))))))))))).....----- ( -24.30, z-score =  -0.61, R)
>droYak2.chr3L_random 479964 90 + 4797643
----UGUGGUUUUUCGGUUCUUGUGCAGUUCAAUUCGAGGCG--GAACGAAACGGACAAUUGCAUAUUUUGAUUGCCGCCUGCAAUUGUCCUGUUC-----
----.((..(.(((((.(((..((........))..))).))--))).)..))(((((((((((................))))))))))).....----- ( -23.09, z-score =  -0.29, R)
>droSec1.super_11 1398335 90 + 2888827
----UGUGGUUUUUCGGUUCUUGUGCAGUUCAAUUCGAGGCG--GAACGAAACGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUUC-----
----....................((((..(((((..(((((--(..(((((((..(....)..)))))))....))))))..)))))..))))..----- ( -25.80, z-score =  -0.93, R)
>droSim1.chr3L 20812223 90 + 22553184
----UGUGGUUUUUCGGUUCUUGUGCAGUUCAAUUCGAGGCG--GAACGAAACGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUUC-----
----....................((((..(((((..(((((--(..(((((((..(....)..)))))))....))))))..)))))..))))..----- ( -25.80, z-score =  -0.93, R)
>consensus
____UGUGGUUUUUCGGUUCUUGUGCAGUUCAAUUCGAGGCG__GAACGAAACGGACAAUUGCAUGUUUUGAUUGCCGCCUGCAAUUGUCCUGUUC_____
...........................((((.............)))).....(((((((((((.((..........)).))))))))))).......... (-16.70 = -17.04 +   0.35)

alignment

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secondary structure

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dotplot

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Window 2

Location 21,474,995 – 21,475,085
Length 90
Sequences 9
Columns 101
Reading direction reverse
Mean pairwise identity 78.56
Shannon entropy 0.42166
G+C content 0.46670
Mean single sequence MFE -21.36
Consensus MFE -16.62
Energy contribution -17.30
Covariance contribution 0.68
Combinations/Pair 1.05
Mean z-score -1.30
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.15
SVM RNA-class probability 0.899500
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21474995 90 - 24543557
-----GAACAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCGUUUCGUUC--CGCCUCGAAUUGAACUGCACAAGAACCGAAAAACCACA----
-----.....(((((((((((................)))))))))))((((.((((--......)))).)))).......................---- ( -20.89, z-score =  -1.08, R)
>droGri2.scaffold_15110 5524778 73 - 24565398
-----UGGCAGGACAAUUGCAGUCGGCAAUCAAAACAUGCAAUUGUCCUUUUCAUUC--CGUUGCGAAUCGAACCGAGAG---------------------
-----.((.((((((((((((((...........)).)))))))))))).(((((((--......)))).))))).....--------------------- ( -19.60, z-score =  -1.50, R)
>droVir3.scaffold_13049 17881976 79 + 25233164
--------CAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCUUUUCGUUC--CGUUGCGAAUCGAACCGAGAGAACCGAAAG------------
--------.((((((((((((................)))))))))))).(((((..--....)))))(((...(....)...)))...------------ ( -22.49, z-score =  -1.93, R)
>droWil1.scaffold_180698 2336264 96 - 11422946
-----GCACAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCGUUUCGUUCGGCAUUGAAAAUCGAACCGAAAACCAAACCAAAACCAAACCGAA
-----.....(((((((((((................)))))))))))((((..(((((..(((.....))).)))))....))))............... ( -23.59, z-score =  -1.86, R)
>droAna3.scaffold_13337 19918314 94 - 23293914
CUGCCGAACAGGACAAUUGCAGGCGGCAAUCAAAACAACCAAUUGUCCGUUUCGUUC--CGCCUCACAUCGAACUGUAAGCGAAACGAAAACCGAA-----
....((....(((((((((...(............)...))))))))).(((((((.--(((...(((......)))..))).)))))))..))..----- ( -22.10, z-score =  -0.88, R)
>droEre2.scaffold_4784 21133023 89 - 25762168
-----GAACAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCGUUUCGUUC--CGCUUCGAAUUGAACUGCACAAGAACCGAAAAACC-CA----
-----.....(((((((((((................)))))))))))((((.((((--......)))).))))....................-..---- ( -20.89, z-score =  -1.02, R)
>droYak2.chr3L_random 479964 90 - 4797643
-----GAACAGGACAAUUGCAGGCGGCAAUCAAAAUAUGCAAUUGUCCGUUUCGUUC--CGCCUCGAAUUGAACUGCACAAGAACCGAAAAACCACA----
-----.....(((((((((((................)))))))))))((((.((((--......)))).)))).......................---- ( -20.89, z-score =  -1.21, R)
>droSec1.super_11 1398335 90 - 2888827
-----GAACAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCGUUUCGUUC--CGCCUCGAAUUGAACUGCACAAGAACCGAAAAACCACA----
-----.....(((((((((((................)))))))))))((((.((((--......)))).)))).......................---- ( -20.89, z-score =  -1.08, R)
>droSim1.chr3L 20812223 90 - 22553184
-----GAACAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCGUUUCGUUC--CGCCUCGAAUUGAACUGCACAAGAACCGAAAAACCACA----
-----.....(((((((((((................)))))))))))((((.((((--......)))).)))).......................---- ( -20.89, z-score =  -1.08, R)
>consensus
_____GAACAGGACAAUUGCAGGCGGCAAUCAAAACAUGCAAUUGUCCGUUUCGUUC__CGCCUCGAAUUGAACUGCACAAGAACCGAAAAACCACA____
..........(((((((((((................)))))))))))((((.((((........)))).))))........................... (-16.62 = -17.30 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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