Locus 6851

Sequence ID 2L_DroMel_CAF1
Location 19,158,876 – 19,159,031
Length 155
Max. P 0.937983
window10921 window10922 window10923 window10924

overview

Window 1

Location 19,158,876 – 19,158,992
Length 116
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 82.77
Mean single sequence MFE -32.03
Consensus MFE -21.84
Energy contribution -24.40
Covariance contribution 2.56
Combinations/Pair 1.08
Mean z-score -2.64
Structure conservation index 0.68
SVM decision value 1.27
SVM RNA-class probability 0.937983
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19158876 116 + 22407834
AAAUCUAU---UUUUCUAUUAAAACUUGGGACUAUUUUGCAUUUUGACAUACGCACCGCACAAUAUUAUGCCCACCACUGUUGGCAGUGGGUGUGUGUGUCAUGGUAAUUGCCUUUGUU
........---...........(((..(((.(....((((....((((((((((((((((........)))....(((((....))))))))))))))))))..))))..))))..))) ( -37.60)
>DroSim_CAF1 39407 116 + 1
AAAUCUUU---UUUUCUAUUAAAACGUGUGCCUACUUUGCAUUUUGACAUACGCAGCGCUCAAUAUUAUGCCCACCACUGUUGGCAGUGGGUGUGUGUGUCAUGGUAAUUGCCUUUGUU
........---...........((((...((.....((((....((((((((((((.((..........)).).((((((....)))))).)))))))))))..))))..))...)))) ( -30.30)
>DroYak_CAF1 37722 111 + 1
AACUCUGUUCCUUUUUUAUUAGAACAUGUACAUAUUUUGCA--------UGAGCACCGCCCAAUAUUGGGCCCACCACUGUUGUCAGUUGGUGUGUGUGUCAUGGUAAUUGCCUUUGUU
.....(((((...........))))).............((--------(((((((.(((((....))))).((((((((....))).))))).)))).)))))............... ( -28.20)
>consensus
AAAUCUAU___UUUUCUAUUAAAACAUGUGCCUAUUUUGCAUUUUGACAUACGCACCGCACAAUAUUAUGCCCACCACUGUUGGCAGUGGGUGUGUGUGUCAUGGUAAUUGCCUUUGUU
....................................((((....((((((((((((((((........)))....(((((....))))))))))))))))))..))))........... (-21.84 = -24.40 +   2.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 19,158,876 – 19,158,992
Length 116
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 82.77
Mean single sequence MFE -26.60
Consensus MFE -18.19
Energy contribution -18.87
Covariance contribution 0.67
Combinations/Pair 1.13
Mean z-score -2.06
Structure conservation index 0.68
SVM decision value 0.47
SVM RNA-class probability 0.747791
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19158876 116 - 22407834
AACAAAGGCAAUUACCAUGACACACACACCCACUGCCAACAGUGGUGGGCAUAAUAUUGUGCGGUGCGUAUGUCAAAAUGCAAAAUAGUCCCAAGUUUUAAUAGAAAA---AUAGAUUU
.......(((.((....(((((.((.((((..(..(((....)))..)(((((....))))))))).)).))))))).)))...........................---........ ( -26.20)
>DroSim_CAF1 39407 116 - 1
AACAAAGGCAAUUACCAUGACACACACACCCACUGCCAACAGUGGUGGGCAUAAUAUUGAGCGCUGCGUAUGUCAAAAUGCAAAGUAGGCACACGUUUUAAUAGAAAA---AAAGAUUU
....(((((........(((((.((.(((((((..(.....)..)))))((......)).....)).)).)))))...(((.......)))...))))).........---........ ( -22.30)
>DroYak_CAF1 37722 111 - 1
AACAAAGGCAAUUACCAUGACACACACACCAACUGACAACAGUGGUGGGCCCAAUAUUGGGCGGUGCUCA--------UGCAAAAUAUGUACAUGUUCUAAUAAAAAAGGAACAGAGUU
.......((((((..((((((((...(((((.(((....)))))))).(((((....))))).))).)))--------))...))).)))...((((((.........))))))..... ( -31.30)
>consensus
AACAAAGGCAAUUACCAUGACACACACACCCACUGCCAACAGUGGUGGGCAUAAUAUUGAGCGGUGCGUAUGUCAAAAUGCAAAAUAGGCACAAGUUUUAAUAGAAAA___AAAGAUUU
.......(((.....((((...(((.((((.((((....)))))))).(((((....))))).)))..))))......)))...................................... (-18.19 = -18.87 +   0.67)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,158,913 – 19,159,031
Length 118
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 89.55
Mean single sequence MFE -34.90
Consensus MFE -27.21
Energy contribution -30.10
Covariance contribution 2.89
Combinations/Pair 1.06
Mean z-score -2.04
Structure conservation index 0.78
SVM decision value 0.02
SVM RNA-class probability 0.544063
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19158913 118 + 22407834
AUUUUGACAUACGCACCGCACAAUAUUAUGCCCACCACUGUUGGCAGUGGGUGUGUGUGUCAUGGUAAUUGCCUUUGUUUUUGCUGCCGCUAUUGCUGCUUUUGGUACCAUUGAACUC
....((((((((((((((((........)))....(((((....))))))))))))))))))((((....(((...((....)).((.((....)).))....)))))))........ ( -38.80)
>DroSim_CAF1 39444 118 + 1
AUUUUGACAUACGCAGCGCUCAAUAUUAUGCCCACCACUGUUGGCAGUGGGUGUGUGUGUCAUGGUAAUUGCCUUUGUUUUUGCUGCCGCUAUUGCUGCUUUUGGUACCAUUGAACUC
....((((((((((((.((..........)).).((((((....)))))).)))))))))))((((....(((...((....)).((.((....)).))....)))))))........ ( -34.80)
>DroYak_CAF1 37762 110 + 1
A--------UGAGCACCGCCCAAUAUUGGGCCCACCACUGUUGUCAGUUGGUGUGUGUGUCAUGGUAAUUGCCUUUGUUUUUGCCGCCGCUAUUACUGCUUUUGGUACCAUUGAACUC
(--------(((((((.(((((....))))).((((((((....))).))))).)))).))))(((((..((....))..)))))(((((.......))....)))............ ( -31.10)
>consensus
AUUUUGACAUACGCACCGCACAAUAUUAUGCCCACCACUGUUGGCAGUGGGUGUGUGUGUCAUGGUAAUUGCCUUUGUUUUUGCUGCCGCUAUUGCUGCUUUUGGUACCAUUGAACUC
....((((((((((((((((........)))....(((((....)))))))))))))))))).(((....)))...((((.((.((((((.......))....)))).))..)))).. (-27.21 = -30.10 +   2.89)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,158,913 – 19,159,031
Length 118
Sequences 3
Columns 118
Reading direction reverse
Mean pairwise identity 89.55
Mean single sequence MFE -31.40
Consensus MFE -25.86
Energy contribution -25.87
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -2.18
Structure conservation index 0.82
SVM decision value 0.40
SVM RNA-class probability 0.719270
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19158913 118 - 22407834
GAGUUCAAUGGUACCAAAAGCAGCAAUAGCGGCAGCAAAAACAAAGGCAAUUACCAUGACACACACACCCACUGCCAACAGUGGUGGGCAUAAUAUUGUGCGGUGCGUAUGUCAAAAU
.......((((((......((.((....)).)).((..........))...))))))((((.((.((((..(..(((....)))..)(((((....))))))))).)).))))..... ( -34.50)
>DroSim_CAF1 39444 118 - 1
GAGUUCAAUGGUACCAAAAGCAGCAAUAGCGGCAGCAAAAACAAAGGCAAUUACCAUGACACACACACCCACUGCCAACAGUGGUGGGCAUAAUAUUGAGCGCUGCGUAUGUCAAAAU
.......((((((......((.((....)).)).((..........))...))))))((((.((.(((((((..(.....)..)))))((......)).....)).)).))))..... ( -28.10)
>DroYak_CAF1 37762 110 - 1
GAGUUCAAUGGUACCAAAAGCAGUAAUAGCGGCGGCAAAAACAAAGGCAAUUACCAUGACACACACACCAACUGACAACAGUGGUGGGCCCAAUAUUGGGCGGUGCUCA--------U
(((.(((.(((((......((.((....)).)).((..........))...))))))))..(((.(((((.(((....)))))))).(((((....))))).)))))).--------. ( -31.60)
>consensus
GAGUUCAAUGGUACCAAAAGCAGCAAUAGCGGCAGCAAAAACAAAGGCAAUUACCAUGACACACACACCCACUGCCAACAGUGGUGGGCAUAAUAUUGAGCGGUGCGUAUGUCAAAAU
..(((..((((((......((.((....)).)).((..........))...))))))))).(((.((((.((((....)))))))).(((((....))))).)))............. (-25.86 = -25.87 +   0.01)

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 12:21:18 2006