Locus 7846

Sequence ID X_DroMel_CAF1
Location 19,549,579 – 19,549,730
Length 151
Max. P 0.999483
window12863 window12864 window12865

overview

Window 3

Location 19,549,579 – 19,549,691
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.35
Mean single sequence MFE -30.14
Consensus MFE -25.12
Energy contribution -25.80
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.42
Structure conservation index 0.83
SVM decision value 0.23
SVM RNA-class probability 0.642212
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19549579 112 - 22224390
UAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGGACGAGUGUCUGUCGACAAAUUCGAAUAGCGUU--------
.......(((((..(((.(((((......(((((...(((((....))))))))))))))).))).....((((((.(((((....)))))))))))..)))))........-------- ( -34.40)
>DroSec_CAF1 13185 116 - 1
UAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGGACGAGUGUCUGUGGACAAACUCGAAUAGCGAUC----GAU
......(((((...((......((((((..((((((.(((((....))))).((((......)))).))))))..))))))((((((((....)))..)))))....))..))----))) ( -34.40)
>DroSim_CAF1 14123 120 - 1
UAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGGACGAGUGUCUGUGGCCAAACUCGAAUAGCGAUCGAUCGAU
......(((((((.(((.(((((......(((((...(((((....))))))))))))))).))).))....(((((((..(((((((.....))...))))).....)))))))))))) ( -34.10)
>DroEre_CAF1 13105 112 - 1
CAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUUCUAAGCACAUGCAGAUAUAUGCACUACUAUCGAUCGGGCGAGUGUAUAUGGGCAGAAUCGAAUAGCCAU--------
......(((((((........))))))).(((((...(((((....))))))))))..((((((((((....((....))...))))))))))(((...........)))..-------- ( -27.10)
>DroYak_CAF1 12780 112 - 1
UAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUACUUCUAAGCACAUGCAGAUAUAUGCACUACUGCCGAUCGGACGAGUGUCUAUGGGCAAAAUAGAAUAACCAU--------
..............(((.((((((.((..(((.....)))..))...((....)))))))).))).(((.((((.((.((((....)))))).))))...))).........-------- ( -20.70)
>consensus
UAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGGACGAGUGUCUGUGGACAAAAUCGAAUAGCGAU________
..(((.(((((((.(((.(((((......(((((...(((((....))))))))))))))).))).))....))))).)))(((.((((....))))...)))................. (-25.12 = -25.80 +   0.68)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,549,611 – 19,549,730
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.49
Mean single sequence MFE -34.90
Consensus MFE -33.52
Energy contribution -33.24
Covariance contribution -0.28
Combinations/Pair 1.08
Mean z-score -2.09
Structure conservation index 0.96
SVM decision value 3.64
SVM RNA-class probability 0.999483
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19549611 119 + 22224390
CCGAUCGACAUUAGUGCAUAUAUCUGCAUGUGCUUAGCAGCACUCAAUGCAUAUCAAAAUAUUUGCUCUUCGACUGGAUAAAAUCGGUCGGGGCUUU-GCGCAAGCCAAGAUCGAAGAUA
(((.((((....((.(((.((((.((((((((((....)))))...))))).......)))).))).)))))).)))......((((((..(((((.-....)))))..))))))..... ( -34.80)
>DroSec_CAF1 13221 120 + 1
CCGAUCGACAUUAGUGCAUAUAUCUGCAUGUGCUUAGCAGCACUCAAUGCAUAUCAAAAUAUUUGCUCUUCGACUGGAUAAAAGCGGUCGGGGCUUUAGCGCAAGCCAAGAUCGAAGAUU
.((((((.((((.(((((......)))))(((((....)))))..)))))..............((((..((((((........))))))))))....((....))...)))))...... ( -33.80)
>DroSim_CAF1 14163 120 + 1
CCGAUCGACAUUAGUGCAUAUAUCUGCAUGUGCUUAGCAGCACUCAAUGCAUAUCAAAAUAUUUGCUCUUCGACUGGAUAAAAUCGGUCGGGGCUUUAGCGCAAGCCAAGAUCGAAGAUU
(((.((((....((.(((.((((.((((((((((....)))))...))))).......)))).))).)))))).)))......((((((..(((((......)))))..))))))..... ( -35.00)
>DroEre_CAF1 13137 119 + 1
CCGAUCGAUAGUAGUGCAUAUAUCUGCAUGUGCUUAGAAGCACUCAAUGCAUAUCAAAAUAUUUGCUCUUCGACUGGAUGAAAUCGGUCGGGGCUUU-GCGCAAGUCUAGAUCGAAAAUU
.(((((((((((((((((......)))))(((((....)))))....))).)))).....((((((.((((((((((......))))))))))....-..))))))...)))))...... ( -35.70)
>DroYak_CAF1 12812 119 + 1
CCGAUCGGCAGUAGUGCAUAUAUCUGCAUGUGCUUAGAAGUACUCAAUGCAUAUCAAAAUAUUUGCUCUUCGACUGGAUAAAAUCGGUCGGGGCUUU-GCGCAAGCCAAGAUCGAAGAUU
.((((((((....(((((......((((((((((....)))))...))))).............((((..(((((((......)))))))))))..)-))))..)))..)))))...... ( -35.20)
>consensus
CCGAUCGACAUUAGUGCAUAUAUCUGCAUGUGCUUAGCAGCACUCAAUGCAUAUCAAAAUAUUUGCUCUUCGACUGGAUAAAAUCGGUCGGGGCUUU_GCGCAAGCCAAGAUCGAAGAUU
(((.((((....((.(((.((((.((((((((((....)))))...))))).......)))).))).)))))).)))......((((((..(((((......)))))..))))))..... (-33.52 = -33.24 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,549,611 – 19,549,730
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.49
Mean single sequence MFE -30.92
Consensus MFE -29.20
Energy contribution -29.60
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.23
Structure conservation index 0.94
SVM decision value 0.66
SVM RNA-class probability 0.814968
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19549611 119 - 22224390
UAUCUUCGAUCUUGGCUUGCGC-AAAGCCCCGACCGAUUUUAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGG
......(((((..(((((....-.)))))..((((((((......))))).((.(((.(((((......(((((...(((((....))))))))))))))).))).))...)))))))). ( -34.60)
>DroSec_CAF1 13221 120 - 1
AAUCUUCGAUCUUGGCUUGCGCUAAAGCCCCGACCGCUUUUAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGG
......(((((..(((((......)))))......((...((((..(((((((........))))))).(((((...(((((....))))))))))))))...)).........))))). ( -32.30)
>DroSim_CAF1 14163 120 - 1
AAUCUUCGAUCUUGGCUUGCGCUAAAGCCCCGACCGAUUUUAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGG
......(((((..(((((......)))))..((((((((......))))).((.(((.(((((......(((((...(((((....))))))))))))))).))).))...)))))))). ( -34.80)
>DroEre_CAF1 13137 119 - 1
AAUUUUCGAUCUAGACUUGCGC-AAAGCCCCGACCGAUUUCAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUUCUAAGCACAUGCAGAUAUAUGCACUACUAUCGAUCGG
......((((((((.(((((..-...))..((((.(........).))))))).(((.(((((......(((((...(((((....))))))))))))))).)))....)))..))))). ( -26.70)
>DroYak_CAF1 12812 119 - 1
AAUCUUCGAUCUUGGCUUGCGC-AAAGCCCCGACCGAUUUUAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUACUUCUAAGCACAUGCAGAUAUAUGCACUACUGCCGAUCGG
......(((((..(((((....-.))))).((((.(........).)))).((.(((.((((((.((..(((.....)))..))...((....)))))))).))).))......))))). ( -26.20)
>consensus
AAUCUUCGAUCUUGGCUUGCGC_AAAGCCCCGACCGAUUUUAUCCAGUCGAAGAGCAAAUAUUUUGAUAUGCAUUGAGUGCUGCUAAGCACAUGCAGAUAUAUGCACUAAUGUCGAUCGG
......(((((..(((((......))))).((((.(........).)))).((.(((.(((((......(((((...(((((....))))))))))))))).))).))......))))). (-29.20 = -29.60 +   0.40)

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 12:48:53 2006