Locus 7652

Sequence ID dm3.chr3L
Location 16,216,230 – 16,216,300
Length 70
Max. P 0.999026
window10532 window10533

overview

Window 2

Location 16,216,230 – 16,216,300
Length 70
Sequences 8
Columns 77
Reading direction forward
Mean pairwise identity 84.27
Shannon entropy 0.30907
G+C content 0.41618
Mean single sequence MFE -22.53
Consensus MFE -17.71
Energy contribution -17.96
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -3.72
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.60
SVM RNA-class probability 0.999026
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16216230 70 + 24543557
----GUUCAAU--GUAUCUCCCUUUAUUGUGCAUUUGUCCUUUGGCAGCGCAGCGAAGGACAAAA-UUCAAUGAACG
----(((((.(--(......((((..((((((...((((....))))))))))..))))......-..)).))))). ( -20.74, z-score =  -2.99, R)
>droSim1.chr3L 15549791 70 + 22553184
----GUUCAAU--GUAUCUCGCUUUAUUGUGCAUUUGUCCUUUGGCAGCGCAGCGAAGGACAAAA-UUCAAUGAACG
----(((((.(--(......((........)).(((((((((((.(......)))))))))))).-..)).))))). ( -21.40, z-score =  -2.67, R)
>droSec1.super_0 8310559 70 + 21120651
----GUUCAAU--GUAUCUUCCUUUAUUGUGCAUUUGUCCUUUGGCAGCGCAGCGAAGGACAAAA-UUCAAUGAACG
----(((((.(--(.....(((((..((((((...((((....))))))))))..))))).....-..)).))))). ( -22.60, z-score =  -3.70, R)
>droYak2.chr3L 2222700 70 - 24197627
----GUUCAAU--GUAUCUCUCUUUAUUGUGCAUUUGUCCUUUGGCAGCUCAGCGAAGGACAAAA-UUCAAUGAACG
----(((((.(--((((...........)))))(((((((((((.(......)))))))))))).-.....))))). ( -19.90, z-score =  -3.21, R)
>droEre2.scaffold_4784 18459211 70 + 25762168
----GUUCAAU--GUAUCUCUCUUUAUUGUGCAUUUGUCCUUUGGCAGCUCACCGAAGGACAAAA-UUCAAUGAACG
----(((((.(--((((...........)))))((((((((((((.......)))))))))))).-.....))))). ( -22.70, z-score =  -4.87, R)
>droAna3.scaffold_13337 12880258 70 - 23293914
----AUUCAAU--GUAUCUCUUUUUAUUGUGCAUUUGUCCUUUGGCAAGGCAACGAAGGACAAAA-UUCAAUGAACG
----.......--.........(((((((....(((((((((((.........))))))))))).-..))))))).. ( -18.30, z-score =  -3.03, R)
>droWil1.scaffold_181024 69363 63 - 1751709
-------------GUGCCGCUGUUUAUUGUGCAUUUGUCCUUUGGCAACGCGCCGAAGGACAAAA-UUCAAUGAACG
-------------........((((((((....(((((((((((((.....))))))))))))).-..)))))))). ( -28.60, z-score =  -5.47, R)
>droGri2.scaffold_15110 2320273 73 + 24565398
UGUCAAUUGGUGAGUGCCGCUGUUUAUUGUACAUUUGUCCUUUGGCAACGUGCCGAAGGACAAAAAUUCAAUG----
(((((((.((((.....))))....)))).)))(((((((((((((.....))))))))))))).........---- ( -26.00, z-score =  -3.84, R)
>consensus
____GUUCAAU__GUAUCUCUCUUUAUUGUGCAUUUGUCCUUUGGCAGCGCAGCGAAGGACAAAA_UUCAAUGAACG
......................(((((((....(((((((((((.........)))))))))))....))))))).. (-17.71 = -17.96 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,216,230 – 16,216,300
Length 70
Sequences 8
Columns 77
Reading direction reverse
Mean pairwise identity 84.27
Shannon entropy 0.30907
G+C content 0.41618
Mean single sequence MFE -17.29
Consensus MFE -11.16
Energy contribution -11.16
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.74
SVM RNA-class probability 0.802656
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 16216230 70 - 24543557
CGUUCAUUGAA-UUUUGUCCUUCGCUGCGCUGCCAAAGGACAAAUGCACAAUAAAGGGAGAUAC--AUUGAAC----
.(((((.((..-.(((((((((.((......))..)))))))))....(......).......)--).)))))---- ( -15.80, z-score =  -1.10, R)
>droSim1.chr3L 15549791 70 - 22553184
CGUUCAUUGAA-UUUUGUCCUUCGCUGCGCUGCCAAAGGACAAAUGCACAAUAAAGCGAGAUAC--AUUGAAC----
.(((((.((..-.(((((((((.((......))..)))))))))(((........))).....)--).)))))---- ( -19.20, z-score =  -2.49, R)
>droSec1.super_0 8310559 70 - 21120651
CGUUCAUUGAA-UUUUGUCCUUCGCUGCGCUGCCAAAGGACAAAUGCACAAUAAAGGAAGAUAC--AUUGAAC----
.(((((.((..-.(((((((((.((......))..)))))))))....(......).......)--).)))))---- ( -15.80, z-score =  -1.43, R)
>droYak2.chr3L 2222700 70 + 24197627
CGUUCAUUGAA-UUUUGUCCUUCGCUGAGCUGCCAAAGGACAAAUGCACAAUAAAGAGAGAUAC--AUUGAAC----
.(((((.((..-.(((((((((.((......))..)))))))))....(......).......)--).)))))---- ( -15.60, z-score =  -1.70, R)
>droEre2.scaffold_4784 18459211 70 - 25762168
CGUUCAUUGAA-UUUUGUCCUUCGGUGAGCUGCCAAAGGACAAAUGCACAAUAAAGAGAGAUAC--AUUGAAC----
.(((((.((..-.(((((((((.(((.....))).)))))))))....(......).......)--).)))))---- ( -18.40, z-score =  -2.61, R)
>droAna3.scaffold_13337 12880258 70 + 23293914
CGUUCAUUGAA-UUUUGUCCUUCGUUGCCUUGCCAAAGGACAAAUGCACAAUAAAAAGAGAUAC--AUUGAAU----
.(((((.((..-.(((((((((.((......))..)))))))))....(........).....)--).)))))---- ( -12.00, z-score =  -0.82, R)
>droWil1.scaffold_181024 69363 63 + 1751709
CGUUCAUUGAA-UUUUGUCCUUCGGCGCGUUGCCAAAGGACAAAUGCACAAUAAACAGCGGCAC-------------
.(((.((((..-.(((((((((.(((.....))).)))))))))....)))).)))........------------- ( -20.70, z-score =  -2.86, R)
>droGri2.scaffold_15110 2320273 73 - 24565398
----CAUUGAAUUUUUGUCCUUCGGCACGUUGCCAAAGGACAAAUGUACAAUAAACAGCGGCACUCACCAAUUGACA
----.((((.((.(((((((((.(((.....))).))))))))).)).)))).......((......))........ ( -20.80, z-score =  -3.09, R)
>consensus
CGUUCAUUGAA_UUUUGUCCUUCGCUGCGCUGCCAAAGGACAAAUGCACAAUAAAGAGAGAUAC__AUUGAAC____
.....((((....(((((((((.(.........).)))))))))....))))......................... (-11.16 = -11.16 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:30:56 2011