Locus 7823

Sequence ID dm3.chr3L
Location 17,624,551 – 17,624,652
Length 101
Max. P 0.973199
window10764 window10765

overview

Window 4

Location 17,624,551 – 17,624,652
Length 101
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 73.53
Shannon entropy 0.47933
G+C content 0.39853
Mean single sequence MFE -23.72
Consensus MFE -10.44
Energy contribution -9.58
Covariance contribution -0.85
Combinations/Pair 1.48
Mean z-score -1.93
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.60
SVM RNA-class probability 0.756613
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17624551 101 + 24543557
AUUGACAGAUUAAACAGACUGUCUGGGAAUUACCAGAGCCUCGA---GGUCGACAAUUUGAAACUAAUUUGACAGA-----UUGCAGAAAACUGCAAUAUGCCACAUUA---
.(((.(((((((..((((.(((((((......)))((.((....---)))))))).))))....))))))).)))(-----((((((....)))))))...........--- ( -24.70, z-score =  -2.88, R)
>droAna3.scaffold_13337 14328647 104 + 23293914
GUUGACAAA---AGCGAUACAACCGGACAUUACAAAAAAUAUCUAU-AGUAUAUACUUUGGAACUAAUUUUGUUUCA----GAGGAAAAAAAUGCACUGCACCCUAAUGAGA
.........---.(((((((....(((.(((......))).)))..-.))))...(((((((((.......))))))----)))........)))................. ( -14.30, z-score =  -0.35, R)
>droEre2.scaffold_4784 9532378 106 - 25762168
AUUGACAGAUCAAACAGGCGGUCUGGGAUUUACCAGGGCCUCGACCAGCUCGACAAUUUGAAACUAAUUUGACAGACUGAUUUGCUGAAGUCUGCAAUAUGCCAUU------
.((((....))))...((((((((((......))).))))((((.....))))...............(((.((((((..........)))))))))...)))...------ ( -25.90, z-score =  -0.79, R)
>droYak2.chr3L 7766559 98 - 24197627
AUUGACAGAUUAAACAGACUGUCUGGGACUUACCAGAACCUCGU---GGUCGACAAUUUGAAACUAAUUUGACAGA-----UUGCAGAAGACUGCAAUGUGCCAUU------
.....(((((((..((((.(((((((......)))((.((....---)))))))).))))....))))))).((.(-----((((((....))))))).)).....------ ( -26.90, z-score =  -2.85, R)
>droSec1.super_0 9670929 98 + 21120651
AUUGACAGAUUAAACAGACUGUCUGGGAAUUACCAGAGCCUCGA---GGUGGACAAUUCGAAACUAAUUUGACAGA-----UUGCAGAAGACUGCAAUAUGCCAUU------
.(((.(((((((.........(((((......)))))...((((---(........)))))...))))))).)))(-----((((((....)))))))........------ ( -24.30, z-score =  -2.30, R)
>droSim1.chr3L 16963880 98 + 22553184
AUUGACAGAUUAAACAGACUGUCUGGGAAUUACCAGAGCCUCGA---GGUGGACAAUUCGAAACUAAUUUGACAGA-----UUGCAGAAGACUGCAAUGUGCCAUU------
.....(((((((.........(((((......)))))...((((---(........)))))...))))))).((.(-----((((((....))))))).)).....------ ( -26.20, z-score =  -2.41, R)
>consensus
AUUGACAGAUUAAACAGACUGUCUGGGAAUUACCAGAGCCUCGA___GGUCGACAAUUUGAAACUAAUUUGACAGA_____UUGCAGAAGACUGCAAUAUGCCAUU______
((((.(((........((...(((((......)))))...)).........................((((.(((......)))))))...))))))).............. (-10.44 =  -9.58 +  -0.85)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 17,624,551 – 17,624,652
Length 101
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 73.53
Shannon entropy 0.47933
G+C content 0.39853
Mean single sequence MFE -25.15
Consensus MFE -12.26
Energy contribution -12.32
Covariance contribution 0.06
Combinations/Pair 1.45
Mean z-score -2.37
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.88
SVM RNA-class probability 0.973199
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 17624551 101 - 24543557
---UAAUGUGGCAUAUUGCAGUUUUCUGCAA-----UCUGUCAAAUUAGUUUCAAAUUGUCGACC---UCGAGGCUCUGGUAAUUCCCAGACAGUCUGUUUAAUCUGUCAAU
---((((.(((((.(((((((....))))))-----).))))).))))....((.((((((((((---....)).))(((......))))))))).)).............. ( -26.20, z-score =  -2.94, R)
>droAna3.scaffold_13337 14328647 104 - 23293914
UCUCAUUAGGGUGCAGUGCAUUUUUUUCCUC----UGAAACAAAAUUAGUUCCAAAGUAUAUACU-AUAGAUAUUUUUUGUAAUGUCCGGUUGUAUCGCU---UUUGUCAAC
...((..(((((((((...(((((((((...----.)))).))))).....((..(((....)))-...((((((......)))))).))))))))).))---..))..... ( -12.90, z-score =   0.90, R)
>droEre2.scaffold_4784 9532378 106 + 25762168
------AAUGGCAUAUUGCAGACUUCAGCAAAUCAGUCUGUCAAAUUAGUUUCAAAUUGUCGAGCUGGUCGAGGCCCUGGUAAAUCCCAGACCGCCUGUUUGAUCUGUCAAU
------..(((((..(((((((((..........)))))).)))..............(((((((.(((...((..((((......)))).))))).))))))).))))).. ( -27.90, z-score =  -1.40, R)
>droYak2.chr3L 7766559 98 + 24197627
------AAUGGCACAUUGCAGUCUUCUGCAA-----UCUGUCAAAUUAGUUUCAAAUUGUCGACC---ACGAGGUUCUGGUAAGUCCCAGACAGUCUGUUUAAUCUGUCAAU
------..(((((.(((((((....))))))-----).))))).(((((...((.((((((((((---....)))).(((......))))))))).)).)))))........ ( -26.90, z-score =  -2.97, R)
>droSec1.super_0 9670929 98 - 21120651
------AAUGGCAUAUUGCAGUCUUCUGCAA-----UCUGUCAAAUUAGUUUCGAAUUGUCCACC---UCGAGGCUCUGGUAAUUCCCAGACAGUCUGUUUAAUCUGUCAAU
------..(((((.(((((((....))))))-----).)))))....((((((((..........---)))))))).(((......)))(((((..........)))))... ( -28.50, z-score =  -4.04, R)
>droSim1.chr3L 16963880 98 - 22553184
------AAUGGCACAUUGCAGUCUUCUGCAA-----UCUGUCAAAUUAGUUUCGAAUUGUCCACC---UCGAGGCUCUGGUAAUUCCCAGACAGUCUGUUUAAUCUGUCAAU
------..(((((.(((((((....))))))-----).)))))....((((((((..........---)))))))).(((......)))(((((..........)))))... ( -28.50, z-score =  -3.76, R)
>consensus
______AAUGGCACAUUGCAGUCUUCUGCAA_____UCUGUCAAAUUAGUUUCAAAUUGUCGACC___UCGAGGCUCUGGUAAUUCCCAGACAGUCUGUUUAAUCUGUCAAU
........(((((..((((((....))))))........................................(((((((((......)))))..))))........))))).. (-12.26 = -12.32 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:34:08 2011