Locus 10076

Sequence ID 3R_DroMel_CAF1
Location 26,993,212 – 26,993,358
Length 146
Max. P 0.996212
window16046 window16047 window16048

overview

Window 6

Location 26,993,212 – 26,993,318
Length 106
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 92.64
Mean single sequence MFE -20.48
Consensus MFE -18.92
Energy contribution -18.84
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -1.87
Structure conservation index 0.92
SVM decision value 2.67
SVM RNA-class probability 0.996212
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26993212 106 + 27905053
UUAAAUUAUAAAUAAUUGCCAUAUGAAGAGAUGGCAUUUAAAAUGGAAGAAAAUUAAGUUUAGCAGACUCUGCCAAAGGAAAUUAAGCCCGAAACAACUUUCCAUA
............(((.((((((........)))))).)))..(((((((.........(((.((((...)))).)))((.........))........))))))). ( -18.70)
>DroSec_CAF1 40715 106 + 1
UUAAAUUAUAAAUAAUUGCCAUAUGAAGAGCUGGCAUUUAAAAUGCAAGAAAAUUAAGUUUAGCAGACUCUGCCAAAGGAAAUUAAGCCAGAAACAACUUGCCAUA
............(((.(((((..........))))).)))....(((((.........(((.((((...)))).)))((........))........))))).... ( -16.60)
>DroSim_CAF1 40779 106 + 1
UUAAAUUAUAAAUAAUUGCCAUAUGAAGAGCAGGCAUUUAAAAUGCAAGAAAAUUAAGUUUGGCAGACUCUGCCAAAGGAAAUUAAGCCAGAAACAACUUGCCAUA
............(((.((((............)))).)))....(((((.........((((((((...))))))))((........))........))))).... ( -22.00)
>DroEre_CAF1 43000 106 + 1
UUAAAUUAUAAAUAAUUGCCAUCUGAAGAGCUGGCAUUUAAAAUGCAAGAAAAUUAAGUUUGGCAGACUCUGCCAAAGGAAAUUGAGCCAGCAACUGCUUGCCAUA
............(((.(((((.((....)).))))).)))....(((((.........((((((((...))))))))((........))........))))).... ( -25.10)
>DroYak_CAF1 41457 106 + 1
UUAAAUUAUAAAUAAUUGCCAUAUGCAAAGCCGGCAUUUAAAAUGCAAGAAAAUUAAGUUUGGCAGACUUUGCCAAAGGAUAUUUGGCCAAAAACUACUUGCCAUA
............(((.((((............)))).)))....(((((.........((((((((...))))))))((........))........))))).... ( -20.00)
>consensus
UUAAAUUAUAAAUAAUUGCCAUAUGAAGAGCUGGCAUUUAAAAUGCAAGAAAAUUAAGUUUGGCAGACUCUGCCAAAGGAAAUUAAGCCAGAAACAACUUGCCAUA
............(((.((((............)))).)))....(((((.........((((((((...))))))))((........))........))))).... (-18.92 = -18.84 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 26,993,212 – 26,993,318
Length 106
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 92.64
Mean single sequence MFE -20.50
Consensus MFE -17.40
Energy contribution -17.64
Covariance contribution 0.24
Combinations/Pair 1.09
Mean z-score -1.35
Structure conservation index 0.85
SVM decision value 0.31
SVM RNA-class probability 0.684560
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26993212 106 - 27905053
UAUGGAAAGUUGUUUCGGGCUUAAUUUCCUUUGGCAGAGUCUGCUAAACUUAAUUUUCUUCCAUUUUAAAUGCCAUCUCUUCAUAUGGCAAUUAUUUAUAAUUUAA
...(((((((((....(((.......)))((((((((...))))))))..))))))))).......(((.((((((........)))))).)))............ ( -20.40)
>DroSec_CAF1 40715 106 - 1
UAUGGCAAGUUGUUUCUGGCUUAAUUUCCUUUGGCAGAGUCUGCUAAACUUAAUUUUCUUGCAUUUUAAAUGCCAGCUCUUCAUAUGGCAAUUAUUUAUAAUUUAA
....(((((........((........))((((((((...)))))))).........)))))....(((.(((((..........))))).)))............ ( -18.90)
>DroSim_CAF1 40779 106 - 1
UAUGGCAAGUUGUUUCUGGCUUAAUUUCCUUUGGCAGAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCUGCUCUUCAUAUGGCAAUUAUUUAUAAUUUAA
....(((((........((........))((((((((...)))))))).........)))))(((.((((((..((((........))))..)))))).))).... ( -20.20)
>DroEre_CAF1 43000 106 - 1
UAUGGCAAGCAGUUGCUGGCUCAAUUUCCUUUGGCAGAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCAGCUCUUCAGAUGGCAAUUAUUUAUAAUUUAA
..((((.(((....))).)).))......((((((((...))))))))..................(((.(((((.((....)).))))).)))............ ( -22.60)
>DroYak_CAF1 41457 106 - 1
UAUGGCAAGUAGUUUUUGGCCAAAUAUCCUUUGGCAAAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCGGCUUUGCAUAUGGCAAUUAUUUAUAAUUUAA
..((.((.((.((....((((........(((((((.....)))))))............((((.....)))).))))..)))).)).))................ ( -20.40)
>consensus
UAUGGCAAGUUGUUUCUGGCUUAAUUUCCUUUGGCAGAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCAGCUCUUCAUAUGGCAAUUAUUUAUAAUUUAA
....(((((........((........))((((((((...)))))))).........)))))....(((.(((((..........))))).)))............ (-17.40 = -17.64 +   0.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 26,993,242 – 26,993,358
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 85.53
Mean single sequence MFE -25.80
Consensus MFE -21.22
Energy contribution -21.66
Covariance contribution 0.44
Combinations/Pair 1.24
Mean z-score -1.96
Structure conservation index 0.82
SVM decision value 1.06
SVM RNA-class probability 0.908482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26993242 116 - 27905053
UGCUGCUGCGAUCCAAUUGACCUUUUAGAGUGUAAAUAAAUAUGGAAAGUUGUUUCGGGCUUAAUUUCCUUUGGCAGAGUCUGCUAAACUUAAUUUUCUUCCAUUUUAAAUGCCAU
.((.(((.(((..(((((..((.((((.........))))...))..)))))..)))))).........((((((((...)))))))).......................))... ( -20.10)
>DroSec_CAF1 40745 107 - 1
---------CAUCCAAUUGGCUUUUUGGAAUGUAAAUAAAUAUGGCAAGUUGUUUCUGGCUUAAUUUCCUUUGGCAGAGUCUGCUAAACUUAAUUUUCUUGCAUUUUAAAUGCCAG
---------........((((..((((((((((((..((((..((.((((((.........))))))))((((((((...))))))))....))))..)))))))))))).)))). ( -26.90)
>DroSim_CAF1 40809 107 - 1
---------CAUCCAAUUGGCUUUUUGGAAUGUAAAUAAAUAUGGCAAGUUGUUUCUGGCUUAAUUUCCUUUGGCAGAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCUG
---------.........(((..((((((((((((..((((..((.((((((.........))))))))((((((((...))))))))....))))..)))))))))))).))).. ( -27.80)
>DroEre_CAF1 43030 107 - 1
---------UAUUUAAUUGGAAUCUUGGAGUGUAAAUAAAUAUGGCAAGCAGUUGCUGGCUCAAUUUCCUUUGGCAGAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCAG
---------........(((....(((((((((((..((((.((((.(((....))).)).))......((((((((...))))))))....))))..)))))))))))...))). ( -28.20)
>DroYak_CAF1 41487 107 - 1
---------CAUCUAAUUGGUCUUUUGAAGUGUACAUAAAUAUGGCAAGUAGUUUUUGGCCAAAUAUCCUUUGGCAAAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCGG
---------........((((..(((((((((((...((((.(((((((.....))).)))).......(((((((.....)))))))....))))...))))))))))).)))). ( -26.00)
>consensus
_________CAUCCAAUUGGCCUUUUGGAGUGUAAAUAAAUAUGGCAAGUUGUUUCUGGCUUAAUUUCCUUUGGCAGAGUCUGCCAAACUUAAUUUUCUUGCAUUUUAAAUGCCAG
.................((((..((((((((((((..((((..(((.((......)).)))........((((((((...))))))))....))))..)))))))))))).)))). (-21.22 = -21.66 +   0.44)

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 13:48:23 2006