Locus 7975

Sequence ID dm3.chr3L
Location 19,077,228 – 19,077,338
Length 110
Max. P 0.996917
window10977 window10978

overview

Window 7

Location 19,077,228 – 19,077,338
Length 110
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 69.46
Shannon entropy 0.56321
G+C content 0.34318
Mean single sequence MFE -21.17
Consensus MFE -10.97
Energy contribution -12.42
Covariance contribution 1.45
Combinations/Pair 1.31
Mean z-score -1.13
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.56
SVM RNA-class probability 0.741604
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19077228 110 + 24543557
----CGAUUUUGAAAACACAUUUAUAUUUAAAUCGCUCCUUAAUUGAUAUGGGCCAAUCAAGGAGGGGCAUAGUGUUUCAGAAUAAAGUG-CAUAAUUGGAAGGGCAUGCGGGGU
----..(((((((((.((((((((....))))).(((((((..(((((........))))).)))))))...))))))))))))....((-(((..((....))..))))).... ( -27.00, z-score =  -1.70, R)
>droSim1.chr3L 18390437 97 + 22553184
----CACAUUUGAAAACACAUUUAUAUUUAAAUCGCCCCUUAAUUGAUAUGGGCCAAUCAAGGAGGGGCAUUGUGUUUCAGAAUAAAGUG-CAUAAUUGGAA-------------
----....(((((((.((((((((....))))..(((((((..(((((........))))).)))))))..)))))))))))........-...........------------- ( -25.20, z-score =  -2.14, R)
>droSec1.super_19 1040627 97 + 1257711
----CACAUUUGAAAACACAUUUAUAUUUAAAUCGCCCCUUAAUUGAUAUGGGCCAAUCAAGGAGGGGCAUUGUGUUUCAGAAUAAAGUG-CAUAAUUGGAA-------------
----....(((((((.((((((((....))))..(((((((..(((((........))))).)))))))..)))))))))))........-...........------------- ( -25.20, z-score =  -2.14, R)
>droYak2.chr3L 2692629 105 - 24197627
----CGUUUUUAAACACACACUUAUAUUUAAAUCGCCCCUUAAUUGAUAUGGGACAAUCAAGGAGAGGCAUUGUAUUUAGGAAUAAUGUG-CAUAAUUGGAAGGGCAAAU-----
----.((((((...((((((.((((.(((((((((((.(((..(((((........))))).))).)))...).))))))).))))))))-......)).))))))....----- ( -17.00, z-score =   0.33, R)
>droEre2.scaffold_4784 18896025 105 + 25762168
----CGAUUUUGAAAACACAUUUAUAUUUAAAUCGCCUCUUAAUUGAUAUGGGGCAAUCAAGGAGGGGCAUUGUGUUUAAGAAUAAAGUG-CAUAAUUGGAAGGGCAUAC-----
----..(((((..(((((((((((....))))..(((((((..(((((........))))).)))))))..))))))).)))))...(((-(............))))..----- ( -23.10, z-score =  -2.11, R)
>droGri2.scaffold_15110 5783925 114 - 24565398
GAAUUUCGCACAAAAACACAAAUAUGCAAAAAUCUUGGGAAAAACUA-ACGGAAAUUUUAUUCAAAUAAAUCAUAGCUAUGUAAGAAGUAACGUUAUAAAAUGCGUAAACAAAGU
......................((((((....((....)).....((-((((((......)))............(((........)))..))))).....))))))........ (  -9.50, z-score =   1.00, R)
>consensus
____CGCUUUUGAAAACACAUUUAUAUUUAAAUCGCCCCUUAAUUGAUAUGGGCCAAUCAAGGAGGGGCAUUGUGUUUAAGAAUAAAGUG_CAUAAUUGGAAGGGCA_AC_____
........(((..(((((((((((....))))).(((((((..(((((........))))).)))))))...))))))..)))................................ (-10.97 = -12.42 +   1.45)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,077,228 – 19,077,338
Length 110
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 69.46
Shannon entropy 0.56321
G+C content 0.34318
Mean single sequence MFE -20.14
Consensus MFE -12.14
Energy contribution -11.65
Covariance contribution -0.49
Combinations/Pair 1.46
Mean z-score -2.19
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.01
SVM RNA-class probability 0.996917
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 19077228 110 - 24543557
ACCCCGCAUGCCCUUCCAAUUAUG-CACUUUAUUCUGAAACACUAUGCCCCUCCUUGAUUGGCCCAUAUCAAUUAAGGAGCGAUUUAAAUAUAAAUGUGUUUUCAAAAUCG----
.....(((((..........))))-)..........(((((((......(((((((((((((......)))))))))))).)(((((....))))))))))))........---- ( -23.10, z-score =  -3.48, R)
>droSim1.chr3L 18390437 97 - 22553184
-------------UUCCAAUUAUG-CACUUUAUUCUGAAACACAAUGCCCCUCCUUGAUUGGCCCAUAUCAAUUAAGGGGCGAUUUAAAUAUAAAUGUGUUUUCAAAUGUG----
-------------...........-.....((((..(((((((..(((((((...(((((((......))))))))))))))(((((....))))))))))))..))))..---- ( -23.30, z-score =  -2.58, R)
>droSec1.super_19 1040627 97 - 1257711
-------------UUCCAAUUAUG-CACUUUAUUCUGAAACACAAUGCCCCUCCUUGAUUGGCCCAUAUCAAUUAAGGGGCGAUUUAAAUAUAAAUGUGUUUUCAAAUGUG----
-------------...........-.....((((..(((((((..(((((((...(((((((......))))))))))))))(((((....))))))))))))..))))..---- ( -23.30, z-score =  -2.58, R)
>droYak2.chr3L 2692629 105 + 24197627
-----AUUUGCCCUUCCAAUUAUG-CACAUUAUUCCUAAAUACAAUGCCUCUCCUUGAUUGUCCCAUAUCAAUUAAGGGGCGAUUUAAAUAUAAGUGUGUGUUUAAAAACG----
-----..((((((..........(-((...((((....))))...))).....((((((((........))))))))))))))((((((((((....))))))))))....---- ( -22.30, z-score =  -2.82, R)
>droEre2.scaffold_4784 18896025 105 - 25762168
-----GUAUGCCCUUCCAAUUAUG-CACUUUAUUCUUAAACACAAUGCCCCUCCUUGAUUGCCCCAUAUCAAUUAAGAGGCGAUUUAAAUAUAAAUGUGUUUUCAAAAUCG----
-----(((((..........))))-)...........((((((..((((....((((((((........)))))))).))))(((((....))))))))))).........---- ( -15.40, z-score =  -1.79, R)
>droGri2.scaffold_15110 5783925 114 + 24565398
ACUUUGUUUACGCAUUUUAUAACGUUACUUCUUACAUAGCUAUGAUUUAUUUGAAUAAAAUUUCCGU-UAGUUUUUCCCAAGAUUUUUGCAUAUUUGUGUUUUUGUGCGAAAUUC
..........(((((..................((((((.((((....((((....((((((.....-.)))))).....)))).....)))).))))))....)))))...... ( -13.45, z-score =   0.13, R)
>consensus
_____GU_UGCCCUUCCAAUUAUG_CACUUUAUUCUGAAACACAAUGCCCCUCCUUGAUUGGCCCAUAUCAAUUAAGGGGCGAUUUAAAUAUAAAUGUGUUUUCAAAAGCG____
.....................................((((((..((((...(((((((((........)))))))))))))(((((....)))))))))))............. (-12.14 = -11.65 +  -0.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:37:03 2011