Locus 124

Sequence ID X_DroMel_CAF1
Location 514,994 – 515,149
Length 155
Max. P 0.995269
window163 window164 window165

overview

Window 3

Location 514,994 – 515,114
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.68
Mean single sequence MFE -32.72
Consensus MFE -24.90
Energy contribution -25.90
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -1.91
Structure conservation index 0.76
SVM decision value 0.77
SVM RNA-class probability 0.845537
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 514994 120 + 22224390
AGUGUGCAAUUGAAAUGCGCGCCAACGCAUGUUCUCAUAUGCGGAGCGUUUAGCAGCCCUUAAAAAGCUUUUCAUGUUGCUUUUAAAAAGCUACGACGGGUGUGGAAAUUAGAUUUGUGA
.(((((((.......)))))))...((((.(((..(((((.((..((.....))(((..((.((((((..........)))))).))..)))....)).)))))..)))......)))). ( -30.50)
>DroSec_CAF1 1038 117 + 1
---GUACAAUUGAAAUGCGCGCCAACGCAUUUUCUCAUAUGCGGUGCGCUUCGCAGCACUUAAAAAGCUUUUCAUUUUGCUUUUUAAAAGCUACGACGGGUGUGAAAAUCAGAUUUGUGA
---.(((((((((....((((((..(((((........)))))...((..(((.(((..(((((((((..........)))))))))..))).)))))))))))....))))..))))). ( -35.00)
>DroSim_CAF1 1052 117 + 1
---GUACAAUUGAAAUGCGCGCCAACGCAUUUUCUCAUAUGCGGUGCGUUUCGCAGCACUUAAAAAGCUUUUCAUUUUGCUUUUAAAAAGCUACGACGGGUGUGAAAAUCAGAUUUGUGA
---.(((((((((....((((((..(((((........)))))...((..(((.(((..((.((((((..........)))))).))..))).)))))))))))....))))..))))). ( -31.10)
>DroEre_CAF1 887 100 + 1
----------------GCGCGCCAACGCAUUGU-UAAUAUG---UGCGUGUUGCAGCACUUGAAAAGCUUUUCAUGUUGCUUUUCAAAAGCUACGACGGGUGUGGGAAUCCGAUUUUUGA
----------------.((((((.((((((...-......)---)))))((((.(((..(((((((((..........)))))))))..))).)))).))))))................ ( -34.30)
>consensus
___GUACAAUUGAAAUGCGCGCCAACGCAUUUUCUCAUAUGCGGUGCGUUUCGCAGCACUUAAAAAGCUUUUCAUGUUGCUUUUAAAAAGCUACGACGGGUGUGAAAAUCAGAUUUGUGA
.................((((((..(((((........)))))...((..(((.(((..(((((((((..........)))))))))..))).)))))))))))................ (-24.90 = -25.90 +   1.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 514,994 – 515,114
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.68
Mean single sequence MFE -30.02
Consensus MFE -23.62
Energy contribution -24.05
Covariance contribution 0.44
Combinations/Pair 1.08
Mean z-score -2.47
Structure conservation index 0.79
SVM decision value 1.80
SVM RNA-class probability 0.977718
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 514994 120 - 22224390
UCACAAAUCUAAUUUCCACACCCGUCGUAGCUUUUUAAAAGCAACAUGAAAAGCUUUUUAAGGGCUGCUAAACGCUCCGCAUAUGAGAACAUGCGUUGGCGCGCAUUUCAAUUGCACACU
......................(((.(((((((((.((((((..........)))))).)))))))))...)))....(((..(((((...(((((....))))))))))..)))..... ( -28.30)
>DroSec_CAF1 1038 117 - 1
UCACAAAUCUGAUUUUCACACCCGUCGUAGCUUUUAAAAAGCAAAAUGAAAAGCUUUUUAAGUGCUGCGAAGCGCACCGCAUAUGAGAAAAUGCGUUGGCGCGCAUUUCAAUUGUAC---
..((((...(((..(.(.......(((((((.((((((((((..........)))))))))).))))))).((((..(((((........)))))...))))).)..))).))))..--- ( -35.70)
>DroSim_CAF1 1052 117 - 1
UCACAAAUCUGAUUUUCACACCCGUCGUAGCUUUUUAAAAGCAAAAUGAAAAGCUUUUUAAGUGCUGCGAAACGCACCGCAUAUGAGAAAAUGCGUUGGCGCGCAUUUCAAUUGUAC---
..((((.(((.((...........(((((((.(((.((((((..........)))))).))).)))))))............)).)))((((((((....))))))))...))))..--- ( -28.10)
>DroEre_CAF1 887 100 - 1
UCAAAAAUCGGAUUCCCACACCCGUCGUAGCUUUUGAAAAGCAACAUGAAAAGCUUUUCAAGUGCUGCAACACGCA---CAUAUUA-ACAAUGCGUUGGCGCGC----------------
.........((....)).....(((((((((.((((((((((..........)))))))))).)))))...(((((---.......-....))))).))))...---------------- ( -28.00)
>consensus
UCACAAAUCUGAUUUCCACACCCGUCGUAGCUUUUUAAAAGCAAAAUGAAAAGCUUUUUAAGUGCUGCGAAACGCACCGCAUAUGAGAAAAUGCGUUGGCGCGCAUUUCAAUUGUAC___
......................(((((((((.((((((((((..........)))))))))).)))))..(((((.................)))))))))................... (-23.62 = -24.05 +   0.44)

alignment

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secondary structure

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dotplot

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Window 5

Location 515,034 – 515,149
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 79.80
Mean single sequence MFE -23.58
Consensus MFE -19.11
Energy contribution -19.30
Covariance contribution 0.19
Combinations/Pair 1.10
Mean z-score -2.55
Structure conservation index 0.81
SVM decision value 2.56
SVM RNA-class probability 0.995269
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 515034 115 - 22224390
-----ACCCCAGACGAUAUAAAAAAAAGAUAUAUAAAGCGUCACAAAUCUAAUUUCCACACCCGUCGUAGCUUUUUAAAAGCAACAUGAAAAGCUUUUUAAGGGCUGCUAAACGCUCCGC
-----......((((.((((...........))))...))))....................(((.(((((((((.((((((..........)))))).)))))))))...)))...... ( -20.40)
>DroSec_CAF1 1075 111 - 1
-----ACCCCAGACGAUAUAAACAAAAGAUAU----AGCGUCACAAAUCUGAUUUUCACACCCGUCGUAGCUUUUAAAAAGCAAAAUGAAAAGCUUUUUAAGUGCUGCGAAGCGCACCGC
-----......((((.((((.........)))----).))))......................(((((((.((((((((((..........)))))))))).))))))).(((...))) ( -25.80)
>DroSim_CAF1 1089 111 - 1
-----ACCCCAGACGAUAUAAACAAAAGAUAU----AGCGUCACAAAUCUGAUUUUCACACCCGUCGUAGCUUUUUAAAAGCAAAAUGAAAAGCUUUUUAAGUGCUGCGAAACGCACCGC
-----......((((.((((.........)))----).))))......................(((((((.(((.((((((..........)))))).))).))))))).......... ( -21.50)
>DroEre_CAF1 910 99 - 1
UACAUACACCAA--------------AAAUUA----AGCGUCAAAAAUCGGAUUCCCACACCCGUCGUAGCUUUUGAAAAGCAACAUGAAAAGCUUUUCAAGUGCUGCAACACGCA---C
............--------------......----.((((........((....))......((.(((((.((((((((((..........)))))))))).))))).)))))).---. ( -26.60)
>consensus
_____ACCCCAGACGAUAUAAACAAAAGAUAU____AGCGUCACAAAUCUGAUUUCCACACCCGUCGUAGCUUUUUAAAAGCAAAAUGAAAAGCUUUUUAAGUGCUGCGAAACGCACCGC
.....................................((((................((....)).(((((.((((((((((..........)))))))))).)))))...))))..... (-19.11 = -19.30 +   0.19)

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 09:34:53 2006