Locus 2724

Sequence ID 3R_DroMel_CAF1
Location 7,321,064 – 7,321,184
Length 120
Max. P 0.843326
window4428 window4429

overview

Window 8

Location 7,321,064 – 7,321,184
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 85.59
Mean single sequence MFE -24.82
Consensus MFE -16.49
Energy contribution -16.49
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.66
SVM decision value 0.31
SVM RNA-class probability 0.683380
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7321064 120 + 27905053
CAGCCUCUCCCGCAUUUCAAAUGCACAUUAAUGGCCAUUUAUAACAAUUUUUGGCUGCCAUCUUAGCUAUCCAAACAUUGCAACCAACUGCCAUUGCAAAUGAAGUGUAAAGGAGAUAGU
.....(((((.((((((((..((((.....(((((.........((((.(((((..((.......))...))))).)))).........)))))))))..))))))))...))))).... ( -32.07)
>DroSim_CAF1 1204 108 + 1
-----------GCAUUUCAAAUGCACAUUAAUGGCCAUUUAUAACAAUUUUUGGCUGCCAUC-UAGCUCUCCAAACAUUCCAACCAACUGCCAUUGCAAAUGAAGUGUAAAGGAGAUAGU
-----------((((((((..((((.....(((((..........(((.(((((..((....-..))...))))).)))..........)))))))))..))))))))............ ( -22.85)
>DroEre_CAF1 1210 104 + 1
-----------CCAUUUCAAAUGCACAUUAAUGGCCAUUUAUAACCAUUUUUGGCUGCCAGCUCUC-----CAAACAGUCCAACCAACUGCCAUUGCAAAUGAAGUGUAAAGGAGAUAGG
-----------((.........((.((..(((((..........)))))..)))).......((((-----(...((((.......))))...(((((.......))))).)))))..)) ( -18.80)
>DroYak_CAF1 1228 109 + 1
-----------GCAUUUCAAAUGCACAUUAAUGGCCAUUUAUAACAAUUUUUGGCUGCCAGCUCUCCCAUCCAAGCGAUGCAACCAAAUGCCAUUGCAAAUGAAGUGUAAAGGAGAUAGG
-----------((((((((..((((.....(((((..............(((((.(((..(((..........)))...))).))))).)))))))))..))))))))............ ( -25.56)
>consensus
___________GCAUUUCAAAUGCACAUUAAUGGCCAUUUAUAACAAUUUUUGGCUGCCAGCUCACCUAUCCAAACAUUCCAACCAACUGCCAUUGCAAAUGAAGUGUAAAGGAGAUAGG
.............(((((...(((((......(((((..............)))))............................((..(((....)))..))..)))))...)))))... (-16.49 = -16.49 +   0.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,321,064 – 7,321,184
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 85.59
Mean single sequence MFE -31.05
Consensus MFE -23.14
Energy contribution -25.20
Covariance contribution 2.06
Combinations/Pair 1.06
Mean z-score -1.97
Structure conservation index 0.75
SVM decision value 0.76
SVM RNA-class probability 0.843326
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7321064 120 - 27905053
ACUAUCUCCUUUACACUUCAUUUGCAAUGGCAGUUGGUUGCAAUGUUUGGAUAGCUAAGAUGGCAGCCAAAAAUUGUUAUAAAUGGCCAUUAAUGUGCAUUUGAAAUGCGGGAGAGGCUG
....((((((...((.((((..(((((((((.(((....(((((.(((((...(((.....)))..))))).)))))....))).))))).....))))..)))).)).))))))..... ( -37.80)
>DroSim_CAF1 1204 108 - 1
ACUAUCUCCUUUACACUUCAUUUGCAAUGGCAGUUGGUUGGAAUGUUUGGAGAGCUA-GAUGGCAGCCAAAAAUUGUUAUAAAUGGCCAUUAAUGUGCAUUUGAAAUGC-----------
.............((.((((..(((((((((..(((((((...(((((((....)))-)))).)))))))..(((......))).))))).....))))..)))).)).----------- ( -25.70)
>DroEre_CAF1 1210 104 - 1
CCUAUCUCCUUUACACUUCAUUUGCAAUGGCAGUUGGUUGGACUGUUUG-----GAGAGCUGGCAGCCAAAAAUGGUUAUAAAUGGCCAUUAAUGUGCAUUUGAAAUGG-----------
.............((.((((..((((.((((.((..(((...(.....)-----...)))..)).))))..((((((((....))))))))....))))..)))).)).----------- ( -29.30)
>DroYak_CAF1 1228 109 - 1
CCUAUCUCCUUUACACUUCAUUUGCAAUGGCAUUUGGUUGCAUCGCUUGGAUGGGAGAGCUGGCAGCCAAAAAUUGUUAUAAAUGGCCAUUAAUGUGCAUUUGAAAUGC-----------
.............((.((((..(((((((((.(((((((((...((((........))))..))))))))).(((......))).))))).....))))..)))).)).----------- ( -31.40)
>consensus
ACUAUCUCCUUUACACUUCAUUUGCAAUGGCAGUUGGUUGCAAUGUUUGGAUAGCAAAGAUGGCAGCCAAAAAUUGUUAUAAAUGGCCAUUAAUGUGCAUUUGAAAUGC___________
.............((.((((..(((((((((..((((((((...((((((....))))))..))))))))..(((......))).))))).....))))..)))).))............ (-23.14 = -25.20 +   2.06)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:19 2006