Locus 13065

Sequence ID dm3.chrX
Location 4,152,332 – 4,152,402
Length 70
Max. P 0.985444
window17952

overview

Window 2

Location 4,152,332 – 4,152,402
Length 70
Sequences 12
Columns 75
Reading direction reverse
Mean pairwise identity 80.98
Shannon entropy 0.41306
G+C content 0.41154
Mean single sequence MFE -13.29
Consensus MFE -8.82
Energy contribution -8.90
Covariance contribution 0.08
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.66
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.20
SVM RNA-class probability 0.985444
Prediction RNA
WARNING Out of training range. z-scores are NOT reliable.

Download alignment: ClustalW | MAF

>dm3.chrX 4152332 70 - 22422827
GCCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAGCACAUUUAUUGCUACAACCA--AUCCCAC--
((..((..((((((((...))))))))..))(-(((....)).)).........))........--.......-- ( -12.50, z-score =  -2.17, R)
>droSim1.chrX 3118309 70 - 17042790
GCCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAGCACAUUUAUUGCUACAACCA--ACCCCAC--
((..((..((((((((...))))))))..))(-(((....)).)).........))........--.......-- ( -12.50, z-score =  -2.29, R)
>droSec1.super_4 3598756 70 + 6179234
GGCAGCUCUUAAAUAUUUCAUAUUUAAUUGCGCCGCUUACGC-GCACAUUUAUUGCUACAACCA--ACCCCAC--
(((.((..((((((((...))))))))..)))))((....))-(((.......)))........--.......-- ( -13.30, z-score =  -2.51, R)
>droYak2.chrX 17485513 70 + 21770863
GCCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAGCACAUUUAUUCCUACAACCA--ACCCCUC--
....((..((((((((...))))))))..))(-(((....)).))...................--.......-- ( -11.70, z-score =  -3.33, R)
>droEre2.scaffold_4690 1527602 70 - 18748788
GCCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAGCACAUUUAUUGCUACAACCA--ACCCCUC--
((..((..((((((((...))))))))..))(-(((....)).)).........))........--.......-- ( -12.50, z-score =  -2.31, R)
>droAna3.scaffold_13117 346478 67 + 5790199
---AGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAGCACAUUUAUUGCUAUAACCA--CCCCCUC--
---.((..((((((((...))))))))..)).-.((....))((((.......)))).......--.......-- ( -12.10, z-score =  -2.58, R)
>dp4.chrXL_group3a 379532 72 + 2690836
GCUAGCUCUUAAAUAUUUCAUAUUUAAUUGCA-CGCGUAAGCAGCACAUUUAUUGCUACAACCAGGAACCCAC--
(((.((..((((((((...))))))))..)).-.((....)))))............................-- ( -12.80, z-score =  -1.82, R)
>droPer1.super_11 2369085 72 - 2846995
GCUAGCUCUUAAAUAUUUCAUAUUUAAUUGCA-CGCGUAAGCAGCACAUUUAUUGCUACAACCAGGAACCCAC--
(((.((..((((((((...))))))))..)).-.((....)))))............................-- ( -12.80, z-score =  -1.82, R)
>droWil1.scaffold_181150 2728278 70 + 4952429
GGCAGCUCUUAAAUAUUUCAUAUUUAAUUUCA-CGCGUAAGCAGCACAUUUAUUGCCACGUUUU--ACCCCUC--
(((((...((((((((...)))))))).....-.((....))..........))))).......--.......-- ( -12.30, z-score =  -2.93, R)
>droVir3.scaffold_12928 6857343 72 - 7717345
GGCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAUUGCAACCCU--CUAACACUGCGUACCCCUGA
.((((...((((((((...))))))))(((((-.((....))..)))))....--......)))).......... ( -14.20, z-score =  -1.14, R)
>droMoj3.scaffold_6328 2526522 64 - 4453435
GGCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAUUGCAACCCU--CUAACAUUGCCA--------
((((((..((((((((...))))))))..))(-(((....))...))......--.......)))).-------- ( -16.30, z-score =  -2.65, R)
>droGri2.scaffold_14853 6445048 71 + 10151454
GGCAGCUUUUAAAUAUUUCAUAUUUAAUUGCG-CGCGUAAGCAAUGCAACCCU--CUACGAACGCCUCCCGCCA-
(((.((..((((((((...))))))))..))(-(((....))...))......--...............))).- ( -16.50, z-score =  -1.98, R)
>consensus
GCCAGCUCUUAAAUAUUUCAUAUUUAAUUGCG_CGCGUAAGCAGCACAUUUAUUGCUACAACCA__ACCCCAC__
....((..((((((((...))))))))..))...((....))................................. ( -8.82 =  -8.90 +   0.08) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:13:54 2011