Locus 5399

Sequence ID dm3.chr2R
Location 20,071,898 – 20,071,997
Length 99
Max. P 0.998946
window7405 window7406

overview

Window 5

Location 20,071,898 – 20,071,997
Length 99
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 53.55
Shannon entropy 0.89433
G+C content 0.49747
Mean single sequence MFE -31.22
Consensus MFE -16.08
Energy contribution -16.25
Covariance contribution 0.17
Combinations/Pair 1.36
Mean z-score -1.30
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.09
SVM RNA-class probability 0.997368
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20071898 99 + 21146708
---CUCUCUGAUUUUACAGUUUUUUAAUAUAUUUGGACUUAGGCUAA-UCCGCGUAGCUGCGCUGCCGGGUACGCCAGCAGCGGAGCGGCGUUCUUAUGUAUA
---....(((......))).......((((((..((((....((...-...))((.(((.((((((.((.....)).)))))).))).))))))..)))))). ( -31.70, z-score =  -1.34, R)
>droSim1.chr3h_random 590807 96 - 1452968
----CAAU-CAUUUGGCGAUCUAA-AUACAAUGGUUUCUUAGCCUAA-GUCCAGGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGCUUAUUUGCGUU
----....-......((.......-........((((((..((....-))..)))))).(((((((.(((...))).))))))).))(((((......))))) ( -32.70, z-score =  -1.32, R)
>droSec1.super_198 15265 97 - 31115
----CAAUUCAUUUGGCGAUCUAA-AUACAAUGGUUUCUUAGCCUAA-GUCGAGGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGCUUAUUUGCGUU
----...........((.......-........((((((..((....-))..)))))).(((((((.(((...))).))))))).))(((((......))))) ( -35.50, z-score =  -1.97, R)
>droEre2.scaffold_4855 7530 86 + 242605
-----AUCUGGCGAUACAUUCUUA-AGUAUAUUUCGGCUAAACCUAAAACCGCGUAGCUGCGCUGCCAGCUACGCCAGCAGCGGAGCGGCUC-----------
-----.....(((((((.......-.)))).....((.....))......)))((.(((.((((((..((...))..)))))).))).))..----------- ( -25.10, z-score =   0.06, R)
>droAna3.scaffold_13230 2044919 86 - 3602488
-------------UUUCCAUUACAAUUUUUACUUAUUCUAGAACUUACGAUACAAGACUGCGCUGCUGCAGAGGGCAGCGGCUGAGCGUCAGCAAUAUA----
-------------..........................................(((.((((((((((.....))))))))...))))).........---- ( -19.00, z-score =  -0.34, R)
>droPer1.super_1295 3256 102 - 6930
UCUCUUCUAUAUUUUACAAUUGUG-GUUUGGGCUUUUGUAAGCCCAAAGCCGCGGAGCUGCGCUGCCAGUGACGCCGGCAGCGGAGCGGCAGAACUAUGUGUU
..(((.((...........(((((-((((((((((....)))))).))))))))).(((.(((((((.(.....).))))))).))))).))).......... ( -43.30, z-score =  -2.90, R)
>consensus
_____AAUUCAUUUUACAAUCUUA_AUUAUAUUUUUUCUAAGCCUAA_GCCGCGGAGCUGCGCUGCCGGCAACGCCAGCAGCGGAGCGGCGCUAAUAUG_GUU
................................................(((.....(((.((((((.((.....)).)))))).))))))............. (-16.08 = -16.25 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 20,071,898 – 20,071,997
Length 99
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 53.55
Shannon entropy 0.89433
G+C content 0.49747
Mean single sequence MFE -29.58
Consensus MFE -18.14
Energy contribution -17.95
Covariance contribution -0.19
Combinations/Pair 1.53
Mean z-score -1.30
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.56
SVM RNA-class probability 0.998946
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 20071898 99 - 21146708
UAUACAUAAGAACGCCGCUCCGCUGCUGGCGUACCCGGCAGCGCAGCUACGCGGA-UUAGCCUAAGUCCAAAUAUAUUAAAAAACUGUAAAAUCAGAGAG---
.............((.(((.(((((((((.....))))))))).)))...))(((-((......)))))...............(((......)))....--- ( -29.10, z-score =  -2.30, R)
>droSim1.chr3h_random 590807 96 + 1452968
AACGCAAAUAAGCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCCUGGAC-UUAGGCUAAGAAACCAUUGUAU-UUAGAUCGCCAAAUG-AUUG----
.((((......)))).((.(((((((.(((...))).))))))).))........-...(((................-.......))).....-....---- ( -28.50, z-score =  -0.07, R)
>droSec1.super_198 15265 97 + 31115
AACGCAAAUAAGCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCCUCGAC-UUAGGCUAAGAAACCAUUGUAU-UUAGAUCGCCAAAUGAAUUG----
.((((......)))).((.(((((((.(((...))).))))))).))........-...(((................-.......)))..........---- ( -28.50, z-score =  -0.34, R)
>droEre2.scaffold_4855 7530 86 - 242605
-----------GAGCCGCUCCGCUGCUGGCGUAGCUGGCAGCGCAGCUACGCGGUUUUAGGUUUAGCCGAAAUAUACU-UAAGAAUGUAUCGCCAGAU-----
-----------.(((......))).((((((((((((......)))))))(((.((((((((.((.......)).)))-))))).)))...)))))..----- ( -29.10, z-score =  -0.33, R)
>droAna3.scaffold_13230 2044919 86 + 3602488
----UAUAUUGCUGACGCUCAGCCGCUGCCCUCUGCAGCAGCGCAGUCUUGUAUCGUAAGUUCUAGAAUAAGUAAAAAUUGUAAUGGAAA-------------
----((((..((((.((((.....(((((.....)))))))))))))..)))).......(((((..((((.......))))..))))).------------- ( -22.20, z-score =  -1.17, R)
>droPer1.super_1295 3256 102 + 6930
AACACAUAGUUCUGCCGCUCCGCUGCCGGCGUCACUGGCAGCGCAGCUCCGCGGCUUUGGGCUUACAAAAGCCCAAAC-CACAAUUGUAAAAUAUAGAAGAGA
.........(((((..(((.(((((((((.....))))))))).)))...(.((.(((((((((....))))))))))-).)............))))).... ( -40.10, z-score =  -3.56, R)
>consensus
AAC_CAUAUAAGCGCCGCUCCGCUGCUGGCGUAGCCGGCAGCGCAGCUCCGCGGC_UUAGGCUAAGAAAAAAUAAAAU_UAAAAUUGUAAAAUCAAAU_____
.............((((((.(((((((((.....))))))))).))).....)))................................................ (-18.14 = -17.95 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:47:34 2011