Locus 8798

Sequence ID 3R_DroMel_CAF1
Location 23,514,338 – 23,514,442
Length 104
Max. P 0.994655
window14129 window14130

overview

Window 9

Location 23,514,338 – 23,514,442
Length 104
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 90.94
Mean single sequence MFE -37.48
Consensus MFE -31.46
Energy contribution -32.90
Covariance contribution 1.44
Combinations/Pair 1.03
Mean z-score -2.35
Structure conservation index 0.84
SVM decision value 2.50
SVM RNA-class probability 0.994655
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23514338 104 + 27905053
AAUGGGUGAUGGGUGUGCUCCAUGGUUGUGGAUGGAGCACUCCAGACGAUGGCAGCAUGUGGUGGCCAGUGCUAAGUACGUGUUGAUUUGGGCGCUUUCGAUUG
...(((((.((((.(((((((((........)))))))))))))..(((...(((((((((.((((....))))..)))))))))..)))..)))))....... ( -38.60)
>DroSec_CAF1 11487 98 + 1
------GGAUGUGUGUGCUCCAUGCUUGUGGAUGGAGCACUCCAGACGACGGCAGCAUGUGGUGGCCAGUGCUAAGUACGUGUUGAUUUGGGCGCUUUCGAUUG
------(((.(((((((((((((.(....).))))))))).(((((......(((((((((.((((....))))..))))))))).))))))))).)))..... ( -40.20)
>DroSim_CAF1 10895 98 + 1
------GGAUGUGUGUGCUCCAUGCUUGUGGAUGGAGCACUCCAGAGGAAGGCAGCAUGUGGUGGCCAGUGCUAAGUACGUGUUGAUUUGGGCGCUUUCGAUUG
------(((.(((((((((((((.(....).))))))))).(((((......(((((((((.((((....))))..))))))))).))))))))).)))..... ( -41.30)
>DroEre_CAF1 13181 94 + 1
------GGA----UGUGUUCCAUGGAUGUGGAGGGAGCACUCCAGACGAUGGCAGCAUGUGGUGGCCACUGCUAAGUACGUGUUGAUUUGGGCGCUUGCGAUUG
------(.(----.(((((((((.(.(.(((((......))))).)).))).(((((((((.((((....))))..)))))))))....)))))).).)..... ( -31.70)
>DroYak_CAF1 11085 98 + 1
------GGAUCUGUGUGCUCCAUGGAUGUGGAUGGAGCACUCCAGACGAUGGCAGCAUGUGGUGGCCACUGCUAAGUACGUGUUGAUUUGGGCGCUUUCGAUUG
------...((((.(((((((((........)))))))))..))))(((.(((((((.((((...))))))))..(..((........))..)))).))).... ( -35.60)
>consensus
______GGAUGUGUGUGCUCCAUGGUUGUGGAUGGAGCACUCCAGACGAUGGCAGCAUGUGGUGGCCAGUGCUAAGUACGUGUUGAUUUGGGCGCUUUCGAUUG
......(((.(((((((((((((........))))))))).(((((......(((((((((.((((....))))..))))))))).))))))))).)))..... (-31.46 = -32.90 +   1.44)

alignment

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secondary structure

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dotplot

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Window 0

Location 23,514,338 – 23,514,442
Length 104
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 90.94
Mean single sequence MFE -24.06
Consensus MFE -20.14
Energy contribution -20.74
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.22
Structure conservation index 0.84
SVM decision value 2.21
SVM RNA-class probability 0.990330
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23514338 104 - 27905053
CAAUCGAAAGCGCCCAAAUCAACACGUACUUAGCACUGGCCACCACAUGCUGCCAUCGUCUGGAGUGCUCCAUCCACAACCAUGGAGCACACCCAUCACCCAUU
.....((................(((....(((((.(((...)))..)))))....)))..((.(((((((((........))))))))).))..))....... ( -24.10)
>DroSec_CAF1 11487 98 - 1
CAAUCGAAAGCGCCCAAAUCAACACGUACUUAGCACUGGCCACCACAUGCUGCCGUCGUCUGGAGUGCUCCAUCCACAAGCAUGGAGCACACACAUCC------
....(....)........((...(((.((.(((((.(((...)))..)))))..)))))...))(((((((((.(....).)))))))))........------ ( -23.90)
>DroSim_CAF1 10895 98 - 1
CAAUCGAAAGCGCCCAAAUCAACACGUACUUAGCACUGGCCACCACAUGCUGCCUUCCUCUGGAGUGCUCCAUCCACAAGCAUGGAGCACACACAUCC------
....(....)....................(((((.(((...)))..)))))((.......)).(((((((((.(....).)))))))))........------ ( -21.00)
>DroEre_CAF1 13181 94 - 1
CAAUCGCAAGCGCCCAAAUCAACACGUACUUAGCAGUGGCCACCACAUGCUGCCAUCGUCUGGAGUGCUCCCUCCACAUCCAUGGAACACA----UCC------
.....(..((((((((.......(((....(((((((((...)))).)))))....))).))).)))))..)((((......)))).....----...------ ( -21.70)
>DroYak_CAF1 11085 98 - 1
CAAUCGAAAGCGCCCAAAUCAACACGUACUUAGCAGUGGCCACCACAUGCUGCCAUCGUCUGGAGUGCUCCAUCCACAUCCAUGGAGCACACAGAUCC------
....(((..(((............)))...(((((((((...)))).)))))...)))((((..(((((((((........))))))))).))))...------ ( -29.60)
>consensus
CAAUCGAAAGCGCCCAAAUCAACACGUACUUAGCACUGGCCACCACAUGCUGCCAUCGUCUGGAGUGCUCCAUCCACAACCAUGGAGCACACACAUCC______
....(....)........((...(((....(((((.((.......)))))))....)))...))(((((((((........))))))))).............. (-20.14 = -20.74 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:00 2006