Locus 1291

Sequence ID 2L_DroMel_CAF1
Location 3,421,110 – 3,421,293
Length 183
Max. P 0.964562
window2105 window2106

overview

Window 5

Location 3,421,110 – 3,421,226
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.92
Mean single sequence MFE -25.35
Consensus MFE -17.00
Energy contribution -17.91
Covariance contribution 0.92
Combinations/Pair 1.08
Mean z-score -1.48
Structure conservation index 0.67
SVM decision value 0.60
SVM RNA-class probability 0.795172
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3421110 116 - 22407834
ACCCUU-CAGUGGUAGUGAUAUUCCUCUUCCUCUUCCGUCUGAGUCAUCAUUAC--CAUCUUUUUCGAUGAUGGCAUCGCAGAGGAGCGUUGCGUAUGCC-ACCUGCAUAGUAAUUAUUG
......-...((((((((((....(((..............)))..))))))))--))((((((.(((((....))))).))))))..(((((.(((((.-....))))))))))..... ( -30.04)
>DroSec_CAF1 10030 117 - 1
ACCCUCCCAGUGGUGGUGAUAUUCCUCUUCAUCUUCCGUCUGACUCAUCAUUAC--CAUCUUUUUCGAUGAUGGCAUCGCAGAGGAGCGUUGCGUAUGCC-CCCUGCAUAGUAAUUAUUG
.......((((((.(((((.........)))))..))).)))(((........(--((((.........)))))....((((.((.((((.....)))).-))))))..)))........ ( -28.90)
>DroAna_CAF1 12582 108 - 1
ACCCUUC------------UACACUCCUUCCUCUUCCGCUUGAAUCAUCAUAAUUUUAAUUUUUUUAACGAAUACUCCGGAGAGGUCUGUUGCGUAUGACGCCCUGCAUAGCAAUUAUUU
.......------------..........(((((.(((..(((....))).....((((.....)))).........))))))))...(((((.((((........)))))))))..... ( -15.40)
>DroSim_CAF1 10247 117 - 1
ACCCUCCCAGUGGUGGUGAUAUUCCUCUUCCUCUUCCGUCUGAGUCAUCAUUAC--CAUCUUUUUCGAUGAUGGCAUCGCAGAGGAGCGUUGCGUAUGCC-CCCUGCAUAGUAAUUAUUG
.........(((((((((((....(((..............)))..))))))))--)))......(((((((.((...((((.((.((((.....)))).-))))))...)).))))))) ( -30.94)
>DroEre_CAF1 10216 94 - 1
ACCC-----------------------UUCCUCUUCCGUCUGAAUCAUCAUUAC--CAUCUUUUUUGAUGAUGGCAUCGCAGAGGACCGUUGCGUAUGCC-CCCUGCAUAGUAAUUAUUC
....-----------------------.((((((..((.....(((((((....--.........))))))).....)).))))))..(((((.(((((.-....))))))))))..... ( -23.42)
>DroYak_CAF1 11005 93 - 1
AC-C-----------------------UUCCUCUUCCGUCUGAAUCAUCAUUAC--CAUCUUUUUUGAUGAUGGCAUCGCAGAGGACCGUUGCGUAUGCC-CCCUGCAUAGUAAUUAUUC
..-.-----------------------.((((((..((.....(((((((....--.........))))))).....)).))))))..(((((.(((((.-....))))))))))..... ( -23.42)
>consensus
ACCCU______________UAUUCCUCUUCCUCUUCCGUCUGAAUCAUCAUUAC__CAUCUUUUUCGAUGAUGGCAUCGCAGAGGACCGUUGCGUAUGCC_CCCUGCAUAGUAAUUAUUG
............................((((((..((.....((((((.................)))))).....)).))))))..(((((.(((((......))))))))))..... (-17.00 = -17.91 +   0.92)

alignment

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secondary structure

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dotplot

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Window 6

Location 3,421,187 – 3,421,293
Length 106
Sequences 3
Columns 107
Reading direction reverse
Mean pairwise identity 94.38
Mean single sequence MFE -23.50
Consensus MFE -22.49
Energy contribution -22.27
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.43
Structure conservation index 0.96
SVM decision value 1.57
SVM RNA-class probability 0.964562
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3421187 106 - 22407834
AUUAUAUAUAUAUCUCUUAUAUAUACUUAUUCGAUCACGAAAUCCGUGGCAACUUUGUAGCGGAUCCACCCUU-CAGUGGUAGUGAUAUUCCUCUUCCUCUUCCGUC
....((((((((.....))))))))........(((((...((((((.(((....))).))))))((((....-..))))..))))).................... ( -23.10)
>DroSec_CAF1 10107 106 - 1
ACU-UAUAUGUAUAUCUUAUAUAUACUUAUCCGAUCACGAAAUCCGUGGCAACUUUGUAGCGGAUCCACCCUCCCAGUGGUGGUGAUAUUCCUCUUCAUCUUCCGUC
...-((((((((.....))))))))........(((((...((((((.(((....))).)))))).(((((.....).))))))))).................... ( -23.70)
>DroSim_CAF1 10324 106 - 1
ACU-UAUAUGUAUAUCUUAUAUAUACUUAUCCGAUCACGAAAUCCGUGGCAACUUUGUAGCGGAUCCACCCUCCCAGUGGUGGUGAUAUUCCUCUUCCUCUUCCGUC
...-((((((((.....))))))))........(((((...((((((.(((....))).)))))).(((((.....).))))))))).................... ( -23.70)
>consensus
ACU_UAUAUGUAUAUCUUAUAUAUACUUAUCCGAUCACGAAAUCCGUGGCAACUUUGUAGCGGAUCCACCCUCCCAGUGGUGGUGAUAUUCCUCUUCCUCUUCCGUC
....((((((((.....))))))))........(((((...((((((.(((....))).))))))((((.......))))..))))).................... (-22.49 = -22.27 +  -0.22)

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 09:58:43 2006