Locus 353

Sequence ID 3R_DroMel_CAF1
Location 1,374,404 – 1,374,524
Length 120
Max. P 0.698051
window582 window583

overview

Window 2

Location 1,374,404 – 1,374,524
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.21
Mean single sequence MFE -42.92
Consensus MFE -30.10
Energy contribution -29.54
Covariance contribution -0.56
Combinations/Pair 1.42
Mean z-score -1.64
Structure conservation index 0.70
SVM decision value 0.12
SVM RNA-class probability 0.595138
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1374404 120 + 27905053
GUGCUUGGCUUGUGGGACGAAUACCAUUCUUGGGCAGCUGGGUGCCAGAGACAAGAUCGUUGGAGCCGACGGAUCGAGAUCCUUUCCCUCUGGAGUUAAGGUGUUCUGUAGCCAUAUUUU
.....(((((.((((........))))....(((((.((..(..((((((........((((....))))((((....)))).....))))))..)..)).)))))...)))))...... ( -36.80)
>DroSec_CAF1 297 117 + 1
AUGCUUGGCUUGCGGAACGAACACUAUUCUUGGGCAUCUGGGUGCCAGAGACAAGAUCGUUGGAGCCCACGGAUUGAG---CUUCCUCUUUGGAGUUAAGGUGUUCUGCAGCCAUGUUUU
..((.(((((.((((((((....(.((((.(((((.(((((...)))))(((......)))...))))).)))).)((---((.((.....))))))....))))))))))))).))... ( -41.80)
>DroSim_CAF1 297 117 + 1
AUGCUUGGCUUGCGGAACGAACACCAUUCUUGGGCAUCUGGGUGCCAGAGACAAGAUCGUUGGAGCCCACGGAUUGAG---CUUCCUCUUUGGAGUUAAGGUGUUCUGCAGCCAUGUUUU
..((.(((((.(((((....(((((((((.(((((.(((((...)))))(((......)))...))))).))))..((---((.((.....))))))..))))))))))))))).))... ( -43.30)
>DroEre_CAF1 379 120 + 1
AUGCUUGGCUCGUGUGACGAACACCAUUGCUGGGCAGCUGGCUGCCAGGGAUAAGACCGUUGGAGCCGACAUGUCGAGCUCCUGCCACUCUGGAGUAAUGGUGUUCUGCAGCCAUUUUUC
.....(((((.(((....(((((((((((((.(((((....))))).((.......))((.((((((((....))).))))).))........)))))))))))))))))))))...... ( -51.00)
>DroYak_CAF1 288 120 + 1
AUGCUUGGCUUGUGUGACGAACGCCAUUGCCGGGCAGCUGGUUGCCAGAGAUAGGACCGUUGGAGCUGAUAUAUAGAACUCCUGCCAUUCUGGUGCAAUGGUGUUCUGCAGCCAUUUUUU
.....(((((.(((....(((((((((((((.(((((....))))).....(((((..((.(((((((.....)))..)))).))..)))))).))))))))))))))))))))...... ( -41.70)
>consensus
AUGCUUGGCUUGUGGGACGAACACCAUUCUUGGGCAGCUGGGUGCCAGAGACAAGAUCGUUGGAGCCGACGGAUCGAG_UCCUUCCACUCUGGAGUUAAGGUGUUCUGCAGCCAUGUUUU
.....(((((.(((....(((((((..((((.(((((....))))).))))...((((((((....)))).)))).......((((.....))))....)))))))))))))))...... (-30.10 = -29.54 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 1,374,404 – 1,374,524
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.21
Mean single sequence MFE -37.06
Consensus MFE -20.25
Energy contribution -21.69
Covariance contribution 1.44
Combinations/Pair 1.15
Mean z-score -2.20
Structure conservation index 0.55
SVM decision value 0.34
SVM RNA-class probability 0.698051
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1374404 120 - 27905053
AAAAUAUGGCUACAGAACACCUUAACUCCAGAGGGAAAGGAUCUCGAUCCGUCGGCUCCAACGAUCUUGUCUCUGGCACCCAGCUGCCCAAGAAUGGUAUUCGUCCCACAAGCCAAGCAC
......(((((...(((.(((......(((((((.((.((((....))))((((.......)))).)).))))))).......((.....))...))).)))(.....).)))))..... ( -28.50)
>DroSec_CAF1 297 117 - 1
AAAACAUGGCUGCAGAACACCUUAACUCCAAAGAGGAAG---CUCAAUCCGUGGGCUCCAACGAUCUUGUCUCUGGCACCCAGAUGCCCAAGAAUAGUGUUCGUUCCGCAAGCCAAGCAU
......(((((((.((((((..............(((.(---((((.....)))))))).....(((((..(((((...)))))....)))))...)))))).....)).)))))..... ( -34.80)
>DroSim_CAF1 297 117 - 1
AAAACAUGGCUGCAGAACACCUUAACUCCAAAGAGGAAG---CUCAAUCCGUGGGCUCCAACGAUCUUGUCUCUGGCACCCAGAUGCCCAAGAAUGGUGUUCGUUCCGCAAGCCAAGCAU
......(((((((.(((((((.............(((.(---((((.....)))))))).....(((((..(((((...)))))....)))))..))))))).....)).)))))..... ( -38.30)
>DroEre_CAF1 379 120 - 1
GAAAAAUGGCUGCAGAACACCAUUACUCCAGAGUGGCAGGAGCUCGACAUGUCGGCUCCAACGGUCUUAUCCCUGGCAGCCAGCUGCCCAGCAAUGGUGUUCGUCACACGAGCCAAGCAU
......(((((.(.((((((((((.((.(((..((((.(((((.(((....))))))))....(((........))).)))).)))...)).))))))))))(.....)))))))..... ( -46.60)
>DroYak_CAF1 288 120 - 1
AAAAAAUGGCUGCAGAACACCAUUGCACCAGAAUGGCAGGAGUUCUAUAUAUCAGCUCCAACGGUCCUAUCUCUGGCAACCAGCUGCCCGGCAAUGGCGUUCGUCACACAAGCCAAGCAU
......(((((...((((.(((((((....(...((((((((((.........))))))...(((((.......))..)))...))))).))))))).))))........)))))..... ( -37.10)
>consensus
AAAAAAUGGCUGCAGAACACCUUAACUCCAGAGAGGAAGGA_CUCAAUCCGUCGGCUCCAACGAUCUUGUCUCUGGCACCCAGCUGCCCAAGAAUGGUGUUCGUCCCACAAGCCAAGCAU
......(((((...(((((((..........(((((.((((.(...................).)))).)))))((((......)))).......)))))))(.....).)))))..... (-20.25 = -21.69 +   1.44)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:04 2006