Locus 6660

Sequence ID 3L_DroMel_CAF1
Location 17,733,973 – 17,734,123
Length 150
Max. P 0.758742
window10830 window10831

overview

Window 0

Location 17,733,973 – 17,734,084
Length 111
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 91.10
Mean single sequence MFE -32.07
Consensus MFE -24.93
Energy contribution -24.99
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.82
Structure conservation index 0.78
SVM decision value 0.36
SVM RNA-class probability 0.705853
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17733973 111 - 23771897
UGCGGGUGUAUACGUUU-UGGGUGUGU--G-UGUGUGUGUGACGUACUUCCGGUUCGUUGCAUUCACCAACACUCGCGUACACCUCCUUUACAUGCAUUCUAUUUCAGAUCUACC
(((((((((..((((..-.((((((.(--(-.(((.(((..(((.((.....)).)))..))).))))))))))))))))))))).........))).................. ( -33.10)
>DroSec_CAF1 15116 107 - 1
UGCGGGUGUAUACGUUU-UGGGUGUGU-------GUGUGUGACGUACUUCCGGUUCGUUGCUUUCACCAACACUCGCGCACACCUCCUUUACAUGCAUUCUAUUUCAGAUAUACU
...((((((((......-.((((((((-------(((.(..(((.((.....)).)))..).............))))))))))).......))))))))............... ( -30.48)
>DroSim_CAF1 17817 107 - 1
UGCGGGUGUAUACGUUU-UGGGUGUGU-------GUGUGUGACGUACUUCCGGUUAGUUGCUUUCACCAACACUCGUGCACACCUCCUUUACAUGCAUUCUAUUUCAGAUAUACU
...((((((((......-.(((((((.-------.((.(((..(......)(((.((.....)).)))..))).))..))))))).......))))))))............... ( -27.34)
>DroYak_CAF1 30595 115 - 1
CGCGGGUGUAUACGUUUAUGGGUGUGUGUGUUGUGUGUGUGACGUACUUCCGGUUCGUUGCAUUCACCAACACUUGCGCACACCUCCUCUUCAUGCAUUCUAUUUCAGAUAUACC
...((((((((........((((((((((((((((.(((..(((.((.....)).)))..))).)).))))))....)))))))).......))))))))............... ( -37.36)
>consensus
UGCGGGUGUAUACGUUU_UGGGUGUGU_______GUGUGUGACGUACUUCCGGUUCGUUGCAUUCACCAACACUCGCGCACACCUCCUUUACAUGCAUUCUAUUUCAGAUAUACC
...((((((((........((((((((.......(((.(..(((.((.....)).)))..)...)))..........)))))))).......))))))))............... (-24.93 = -24.99 +   0.06)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,734,013 – 17,734,123
Length 110
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 91.47
Mean single sequence MFE -32.80
Consensus MFE -27.92
Energy contribution -28.18
Covariance contribution 0.25
Combinations/Pair 1.03
Mean z-score -1.67
Structure conservation index 0.85
SVM decision value 0.50
SVM RNA-class probability 0.758742
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17734013 110 - 23771897
CUCGCAUCAGCUCACUCACGAGUAUUUCCCGCUCUCUUCUGCGGGUGUAUACGUUU-UGGGUGUGU--G-UGUGUGUGUGACGUACUUCCGGUUCGUUGCAUUCACCAACACUC
...((....)).((((((.((((((..(((((........)))))...)))).)).-)))))).((--(-((((.(((..(((.((.....)).)))..))).)))..)))).. ( -38.10)
>DroSec_CAF1 15156 106 - 1
CUUGCAUCAGCUCACUCACGAGUAUUUCCCGUUCUCUUCUGCGGGUGUAUACGUUU-UGGGUGUGU-------GUGUGUGACGUACUUCCGGUUCGUUGCUUUCACCAACACUC
.........((.((((((.((((((..(((((........)))))...)))).)).-)))))).))-------(((.(..(((.((.....)).)))..)...)))........ ( -30.50)
>DroSim_CAF1 17857 106 - 1
CUUGCAUCAGCUCACUCACGAGUAUUUCCCGUUCUCUUCUGCGGGUGUAUACGUUU-UGGGUGUGU-------GUGUGUGACGUACUUCCGGUUAGUUGCUUUCACCAACACUC
.........((.((((((.((((((..(((((........)))))...)))).)).-)))))).))-------((((((((.(((((.......)).)))..))))..)))).. ( -27.90)
>DroYak_CAF1 30635 114 - 1
CCUGCAUCAGCUCACUCACGAGUAUUUCCCCCUCCCUUCCGCGGGUGUAUACGUUUAUGGGUGUGUGUGUUGUGUGUGUGACGUACUUCCGGUUCGUUGCAUUCACCAACACUU
.........((.((((((...((((..(((.(........).)))...)))).....)))))).))((((((((.(((..(((.((.....)).)))..))).)).)))))).. ( -34.70)
>consensus
CUUGCAUCAGCUCACUCACGAGUAUUUCCCGCUCUCUUCUGCGGGUGUAUACGUUU_UGGGUGUGU_______GUGUGUGACGUACUUCCGGUUCGUUGCAUUCACCAACACUC
.........(((((...(((.((((..(((((........))))).)))).)))...)))))((((.......(((.(..(((.((.....)).)))..)...)))..)))).. (-27.92 = -28.18 +   0.25)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:47 2006