Locus 4864

Sequence ID 2L_DroMel_CAF1
Location 13,835,487 – 13,835,641
Length 154
Max. P 0.996796
window7715 window7716 window7717

overview

Window 5

Location 13,835,487 – 13,835,607
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -30.82
Consensus MFE -25.14
Energy contribution -26.18
Covariance contribution 1.04
Combinations/Pair 1.03
Mean z-score -2.54
Structure conservation index 0.82
SVM decision value 2.41
SVM RNA-class probability 0.993571
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13835487 120 + 22407834
UUAGUUAAAAAUUAAUCACCCACUUGAGUUGGUGGAAGUUCGCUCUGUAGAGUGACCACUGUACCUGCUCUUCAUCCACAGUUUGUUGUGGAACGCCUCGCACCAACUACAUACUUUUAC
........................((((((((((((((...((...(((.(((....))).)))..)).)))).(((((((....)))))))........)))))))).))......... ( -31.60)
>DroSec_CAF1 2063 120 + 1
CAACUUAAAAUUAAAUCACCCAUUUGAGUUGGUGGAAGUUCGCUCGGUAGAGUUACCACUGUACCUGCUCUUCUUCCACAGUUUGUUGUGGAACGCCUCGCACCAACUACAUACUUUUAC
........................((((((((((((((...((..((((.(((....))).)))).)).))))((((((((....)))))))).......)))))))).))......... ( -33.60)
>DroSim_CAF1 3216 120 + 1
CAACUUAAAAUUAAAUCACCUAUUUGAGUUGGUGGAAGUUCGCUCUGUAGAGUUACCACUGUACCUGCUAUUCUUCCACAGUUUGUUGUGGAACGCCUCGCACCAACUACAUACUUUUAC
(((((((((.............)))))))))(((((((...((...(((.(((....))).)))..))....)))))))(((.(((..(((..((...))..)))...))).)))..... ( -29.42)
>DroEre_CAF1 3187 119 + 1
CCAAUUAAAAUUCAAUCAAAUAUUUGAAUUGGUG-AAGUUGGCUCUGUAGAGUGACCACUGUACCUGCUCUUCUUCCACAGUUUGUUGUGGAACGCCUCGCACCGACUACAUACUUUUAC
........(((((((........)))))))((((-.....(((...(((.(((....))).))).........((((((((....)))))))).)))...))))................ ( -28.80)
>DroYak_CAF1 3041 120 + 1
CCAAUUAAAAUUGACCCACCCAUUUGAGUUGGUGGAAAUUCGCUCCAUAGAGCGAUCACUGUACCUGCUCUUCUUCCACAGUUUGUUGUGGAACGCCUCGCACCAACUACAUACUUUUAC
.((((....))))...........((((((((((((...((((((....))))))..................((((((((....))))))))....)).)))))))).))......... ( -30.70)
>consensus
CAAAUUAAAAUUAAAUCACCCAUUUGAGUUGGUGGAAGUUCGCUCUGUAGAGUGACCACUGUACCUGCUCUUCUUCCACAGUUUGUUGUGGAACGCCUCGCACCAACUACAUACUUUUAC
........................((((((((((((((...((...(((.(((....))).)))..)).)))).(((((((....)))))))........)))))))).))......... (-25.14 = -26.18 +   1.04)

alignment

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secondary structure

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dotplot

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Window 6

Location 13,835,487 – 13,835,607
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.67
Mean single sequence MFE -31.90
Consensus MFE -27.74
Energy contribution -27.70
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.30
Structure conservation index 0.87
SVM decision value 0.22
SVM RNA-class probability 0.639504
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13835487 120 - 22407834
GUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAUGAAGAGCAGGUACAGUGGUCACUCUACAGAGCGAACUUCCACCAACUCAAGUGGGUGAUUAAUUUUUAACUAA
.........((.((((((((.((((...((((((......))))))......((..(((.(((....))).)))...))...))))))))))))))........................ ( -30.40)
>DroSec_CAF1 2063 120 - 1
GUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGGUAACUCUACCGAGCGAACUUCCACCAACUCAAAUGGGUGAUUUAAUUUUAAGUUG
.........((.((((((((.((((..(((((((......))))))).....((.((((.(((....))).))))..))...)))))))))))))).......((((((....)))))). ( -35.80)
>DroSim_CAF1 3216 120 - 1
GUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAUAGCAGGUACAGUGGUAACUCUACAGAGCGAACUUCCACCAACUCAAAUAGGUGAUUUAAUUUUAAGUUG
.........((.((((((((.((((..(((((((......))))))).....((..(((.(((....))).)))...))...)))))))))))))).......((((((....)))))). ( -32.30)
>DroEre_CAF1 3187 119 - 1
GUAAAAGUAUGUAGUCGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGGUCACUCUACAGAGCCAACUU-CACCAAUUCAAAUAUUUGAUUGAAUUUUAAUUGG
................((((.(((((.(((((((......))))))).....)).(((.(.((((.....)))).).)))..)))-))))(((((((........)))))))........ ( -27.10)
>DroYak_CAF1 3041 120 - 1
GUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGAUCGCUCUAUGGAGCGAAUUUCCACCAACUCAAAUGGGUGGGUCAAUUUUAAUUGG
.........((.((((((((.(((((.(((((((......))))))).....))...........((((((....))))))..)))))))))))))...........((((....)))). ( -33.90)
>consensus
GUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGGUCACUCUACAGAGCGAACUUCCACCAACUCAAAUGGGUGAUUUAAUUUUAAGUGG
.........((.((((((((.((((..(((((((......))))))).....((..(((.(((....))).)))...))...))))))))))))))........................ (-27.74 = -27.70 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 13,835,527 – 13,835,641
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 95.70
Mean single sequence MFE -36.62
Consensus MFE -32.58
Energy contribution -32.50
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -2.15
Structure conservation index 0.89
SVM decision value 2.75
SVM RNA-class probability 0.996796
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13835527 114 - 22407834
AGUGCGAGAAUUUACGUCGAGCGCAGCCGAGUAUGUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAUGAAGAGCAGGUACAGUGGUCACUCUACAGAGCG
.((((........(((((...((((.((((.((((((....)))))).)))))))).)))))((((((......))))))..........)))).((((.....))))...... ( -35.70)
>DroSec_CAF1 2103 114 - 1
AGUGCGAGAAUUUACGUCGAGCCCAGCCGAGUAUGUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGGUAACUCUACCGAGCG
..(((.........((((..(((((((...((((......))))...))))).))..))))(((((((......))))))).....)))((((.(((....))).))))..... ( -36.50)
>DroSim_CAF1 3256 114 - 1
AGUGCGAGAAUUUACGUCGAGCGCAGCCGAGUAUGUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAUAGCAGGUACAGUGGUAACUCUACAGAGCG
.((((.........((((...((((.((((.((((((....)))))).)))))))).))))(((((((......))))))).........)))).((((.....))))...... ( -35.90)
>DroEre_CAF1 3226 114 - 1
AGUGCGAGAAUUUACGUCGAGCGCAGCCGAGUAUGUAAAAGUAUGUAGUCGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGGUCACUCUACAGAGCC
..(((.........((((...((((.((((.((((((....)))))).)))))))).))))(((((((......))))))).....)))(((.(.((((.....)))).).))) ( -38.50)
>DroYak_CAF1 3081 114 - 1
AGUGCGAGAAUUUACGUCGAGCGCAGACGAGUAUGUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGAUCGCUCUAUGGAGCG
.((((.........((((..((((.(((..((((......))))...))).))))..))))(((((((......))))))).........))))......(((((....))))) ( -36.50)
>consensus
AGUGCGAGAAUUUACGUCGAGCGCAGCCGAGUAUGUAAAAGUAUGUAGUUGGUGCGAGGCGUUCCACAACAAACUGUGGAAGAAGAGCAGGUACAGUGGUCACUCUACAGAGCG
..(((........(((((...((((.((((.((((((....)))))).)))))))).)))))((((((......))))))......))).(((.(((....))).)))...... (-32.58 = -32.50 +  -0.08)

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 11:29:40 2006