Locus 5087

Sequence ID dm3.chr2R
Location 17,659,551 – 17,659,660
Length 109
Max. P 0.733964
window6981 window6982

overview

Window 1

Location 17,659,551 – 17,659,660
Length 109
Sequences 8
Columns 115
Reading direction forward
Mean pairwise identity 70.45
Shannon entropy 0.57855
G+C content 0.48142
Mean single sequence MFE -32.57
Consensus MFE -11.90
Energy contribution -10.96
Covariance contribution -0.94
Combinations/Pair 1.45
Mean z-score -1.73
Structure conservation index 0.37
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.41
SVM RNA-class probability 0.682012
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17659551 109 + 21146708
-----UGUGUGUGUGU-GUCCUGCAGCCAAUAAGUUGCCAGCAGCCGUUGCCAUUGCAGCGAAUAUCCUUUCUGGCUGCCUGACAUUUAUGUACGACUAUAUAUGGGUAUGGGUA
-----.(((..((.((-(((..(((((((....((((....))))((((((....))))))...........)))))))..))))).))..)))..((((((....))))))... ( -39.50, z-score =  -2.09, R)
>droSim1.chr2R 16300655 109 + 19596830
-----UGUGUGUGUGU-GUCCUGCAGCCAAUAAGUUGCCAGCAGCCGUUGCCAUUGCAGCGAAUAUCCUUUCUGGCUGCCUGACAUUUAUGUACGGCUAUGUAUGUGUAUGUGCG
-----.(((..((.((-(((..(((((((....((((....))))((((((....))))))...........)))))))..))))).))..))).((.(((((....))))))). ( -38.00, z-score =  -1.92, R)
>droSec1.super_9 981875 112 + 3197100
--GUUUGUGUGUGUGU-AUCCUGCAACCAAUAAGUUGCCAGCAGCCGUUGCCAUUGCAGCGAAUACCCUUUCUGGCUGCCUGACAUUUAUGUACGGCUAUGUAUGUGUAUGUGCG
--((.((..((((..(-(.((.(((((......)))))(((((((((((((....)))))(((......))).))))).)))............)).))..))))..))...)). ( -33.70, z-score =  -0.98, R)
>droYak2.chr2R 9618877 111 - 21139217
--GCGUUUGUGUGUGU-GUCCUGCAGCCAAUAAGUUGCCAGCAGCCGUUGCCAUUGCAGCGAAUAUCCUUUCUGGCUGCCUGACAUUUAUGUACGACUUUAUAUUG-UAUGUGUG
--....(((((..(((-(((..(((((((....((((....))))((((((....))))))...........)))))))..)))))..)..)))))..........-........ ( -33.90, z-score =  -1.98, R)
>droEre2.scaffold_4845 11799783 85 + 22589142
-------UGUGUGUGU-GUCCUGCAGCCAAUAAGUUGCCAGCAGCCGUUGCCAUUGCAGCGAAUAUCCUUUCUGGCUGCCUGACAUUUAUGUA----------------------
-------((..((.((-(((..(((((((....((((....))))((((((....))))))...........)))))))..))))).))..))---------------------- ( -31.40, z-score =  -3.47, R)
>droAna3.scaffold_13266 11045943 82 + 19884421
-----UGCGUGUGUGU-GUCCUGCAGCCAAUAAGUUGCCUGCAGCCGUUGCCACUGCAGCCAAUAUCCUUCCUG----CUUGACAUUUAUGU-----------------------
-----.(((((...((-(((..((((.......((((.((((((.........)))))).)))).......)))----)..))))).)))))----------------------- ( -25.44, z-score =  -2.29, R)
>droVir3.scaffold_12875 10210319 106 + 20611582
ACGCUCACGCAUGUGU-GCCUUACAGCCAAUAAGUUGACAGCAGCCGUUGCCAUUGCAGGAAAAUUCUGUCGCAGCAACUUUAUGUCUGUGUGUGUGUGUGUGUGAG--------
...((((((((((..(-((..(((((.((....((((....)))).(((((....((((((...))))))....)))))....)).))))).)))..))))))))))-------- ( -35.70, z-score =  -1.13, R)
>droGri2.scaffold_15245 3367168 102 + 18325388
-----UAUUUGUGUGUAGCCUUACAGCCAAUAAGUUGACAGCAGCCGUUGCCAGUGCAGCAAAAUCCUGUCGCAGCACAUUUAUAUAUAGAAGUGUGUGUAUGUCCA--------
-----.....((((((.((((((.......))))..(((((.....(((((....)))))......))))))).)))))).((((((((....))))))))......-------- ( -22.90, z-score =   0.02, R)
>consensus
_____UGUGUGUGUGU_GUCCUGCAGCCAAUAAGUUGCCAGCAGCCGUUGCCAUUGCAGCGAAUAUCCUUUCUGGCUGCCUGACAUUUAUGUACG_CUAUAUAUG_G________
.......((((.((((.((...(((((......)))))..))....(((((....)))))......................)))).))))........................ (-11.90 = -10.96 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,659,551 – 17,659,660
Length 109
Sequences 8
Columns 115
Reading direction reverse
Mean pairwise identity 70.45
Shannon entropy 0.57855
G+C content 0.48142
Mean single sequence MFE -28.26
Consensus MFE -12.20
Energy contribution -13.30
Covariance contribution 1.10
Combinations/Pair 1.39
Mean z-score -1.47
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.54
SVM RNA-class probability 0.733964
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17659551 109 - 21146708
UACCCAUACCCAUAUAUAGUCGUACAUAAAUGUCAGGCAGCCAGAAAGGAUAUUCGCUGCAAUGGCAACGGCUGCUGGCAACUUAUUGGCUGCAGGAC-ACACACACACA-----
..............................((((..((((((((.((((.....)((((((.((....))..))).)))..))).))))))))..)))-)..........----- ( -30.60, z-score =  -1.33, R)
>droSim1.chr2R 16300655 109 - 19596830
CGCACAUACACAUACAUAGCCGUACAUAAAUGUCAGGCAGCCAGAAAGGAUAUUCGCUGCAAUGGCAACGGCUGCUGGCAACUUAUUGGCUGCAGGAC-ACACACACACA-----
..............................((((..((((((((.((((.....)((((((.((....))..))).)))..))).))))))))..)))-)..........----- ( -30.60, z-score =  -1.57, R)
>droSec1.super_9 981875 112 - 3197100
CGCACAUACACAUACAUAGCCGUACAUAAAUGUCAGGCAGCCAGAAAGGGUAUUCGCUGCAAUGGCAACGGCUGCUGGCAACUUAUUGGUUGCAGGAU-ACACACACACAAAC--
..............(((((((((.......(((((.(((((..(((......))))))))..)))))))))))).))((((((....)))))).....-..............-- ( -30.01, z-score =  -1.31, R)
>droYak2.chr2R 9618877 111 + 21139217
CACACAUA-CAAUAUAAAGUCGUACAUAAAUGUCAGGCAGCCAGAAAGGAUAUUCGCUGCAAUGGCAACGGCUGCUGGCAACUUAUUGGCUGCAGGAC-ACACACACAAACGC--
........-.....................((((..((((((((.((((.....)((((((.((....))..))).)))..))).))))))))..)))-).............-- ( -30.60, z-score =  -2.35, R)
>droEre2.scaffold_4845 11799783 85 - 22589142
----------------------UACAUAAAUGUCAGGCAGCCAGAAAGGAUAUUCGCUGCAAUGGCAACGGCUGCUGGCAACUUAUUGGCUGCAGGAC-ACACACACA-------
----------------------........((((..((((((((.((((.....)((((((.((....))..))).)))..))).))))))))..)))-)........------- ( -30.60, z-score =  -3.61, R)
>droAna3.scaffold_13266 11045943 82 - 19884421
-----------------------ACAUAAAUGUCAAG----CAGGAAGGAUAUUGGCUGCAGUGGCAACGGCUGCAGGCAACUUAUUGGCUGCAGGAC-ACACACACGCA-----
-----------------------.......((((..(----(((..((....(((.((((((((....).))))))).)))....))..))))..)))-)..........----- ( -27.90, z-score =  -2.74, R)
>droVir3.scaffold_12875 10210319 106 - 20611582
--------CUCACACACACACACACACAGACAUAAAGUUGCUGCGACAGAAUUUUCCUGCAAUGGCAACGGCUGCUGUCAACUUAUUGGCUGUAAGGC-ACACAUGCGUGAGCGU
--------(((((............((((.((..(((((((.(((.(((.......))))...(((....))))).).))))))..)).))))...((-(....))))))))... ( -25.20, z-score =   0.77, R)
>droGri2.scaffold_15245 3367168 102 - 18325388
--------UGGACAUACACACACUUCUAUAUAUAAAUGUGCUGCGACAGGAUUUUGCUGCACUGGCAACGGCUGCUGUCAACUUAUUGGCUGUAAGGCUACACACAAAUA-----
--------............................((((..(((((((.(..(((((.....)))))....).)))))..(((((.....)))))))..))))......----- ( -20.60, z-score =   0.41, R)
>consensus
________C_CAUACAUAG_CGUACAUAAAUGUCAGGCAGCCAGAAAGGAUAUUCGCUGCAAUGGCAACGGCUGCUGGCAACUUAUUGGCUGCAGGAC_ACACACACACA_____
...............................(((..((.(((((.(((.......((.((...(....).)).))......))).))))).))..)))................. (-12.20 = -13.30 +   1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:41:36 2011