Locus 5508

Sequence ID 2L_DroMel_CAF1
Location 15,762,870 – 15,763,030
Length 160
Max. P 0.997206
window8741 window8742 window8743

overview

Window 1

Location 15,762,870 – 15,762,990
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.17
Mean single sequence MFE -41.22
Consensus MFE -36.32
Energy contribution -37.04
Covariance contribution 0.72
Combinations/Pair 1.16
Mean z-score -1.43
Structure conservation index 0.88
SVM decision value 0.81
SVM RNA-class probability 0.856638
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15762870 120 - 22407834
GGUGAGCCCAAGUUUGAGUGCAAUGUCUGCGGCAAAAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCACACGGAUGAGCGGCGCUUCAAGUGCGAGGUUUGUGGCAGC
.(((.((((..((......))..((((((((((.....)))))))))).))))............(((((....))))).)))......((.(((((((......)))))..)).))... ( -45.10)
>DroSec_CAF1 14289 120 - 1
GGUGAGCCCAAGUUUGAGUGCAAUGUCUGCGGCAAGAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCACACGGAUGAGCGGCGCUUCAAGUGCGAGGUUUGUGGCAGC
.(((.((((..((......))..((((((((((.....)))))))))).))))............(((((....))))).)))......((.(((((((......)))))..)).))... ( -45.10)
>DroSim_CAF1 14482 120 - 1
GGUGAGCCCAAGUUCGAGUGCAAUGUCUGCGGCAAGAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCACACGGAUGAGCGGCGCUUCAAGUGCGAGGUUUGCGGCAAC
.(..(((((..((((((((((..((((((((((.....))))))))))...)).)))).......(((((....)))))........)))).((((.....))))).))))..)...... ( -47.70)
>DroEre_CAF1 14302 120 - 1
GGUGAGCCCAGGUUUGAGUGCAACAUCUGUGGGAAAAAACUGCAGACUCGGGCGAUUCUUAACAAGCACAAGUACGUGCACACAGAGGAGCGACGCUUCAAGUGCGAGGUUUGUGGCAGC
.(((.((((((((......))....((((..(.......)..)))))).))))............((((......)))).)))......((.(((((((......)))))..)).))... ( -34.50)
>DroYak_CAF1 14408 120 - 1
GGUGAGCCCAGGUUUGAGUGUAAUAUCUGCGGCAAAAAACUGCAGACUCGGGCAAUUCUUAACAAGCACAAGUAUGUGCACACGGAGGAAAGACGCUUUAAGUGCGAGGUUUGUGGCAGC
.....(((((((((((((.......(((((((.......))))))))))))))..(((((.....(((((....))))).....)))))....(((.......)))....))).)))... ( -33.71)
>consensus
GGUGAGCCCAAGUUUGAGUGCAAUGUCUGCGGCAAAAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCACACGGAUGAGCGGCGCUUCAAGUGCGAGGUUUGUGGCAGC
.(((.((((..((......))..((((((((((.....)))))))))).))))............((((......)))).)))......((.(((((((......)))))..)).))... (-36.32 = -37.04 +   0.72)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,762,910 – 15,763,030
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.08
Mean single sequence MFE -33.26
Consensus MFE -27.66
Energy contribution -27.82
Covariance contribution 0.16
Combinations/Pair 1.18
Mean z-score -1.38
Structure conservation index 0.83
SVM decision value 0.18
SVM RNA-class probability 0.622698
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15762910 120 + 22407834
UGCACAUACUUGUGCUUGUUAAGAAUCGCCCGUGUCUGCAGCUUUUUGCCGCAGACAUUGCACUCAAACUUGGGCUCACCAUGUGUCUGACUGUGCACCUGGAAAUUGUAUACAAAUUUC
.(((((....)))))((((..(.(((..((.((((((((.((.....)).))))))))((((((((.((.(((.....)))...)).)))..)))))...))..))).)..))))..... ( -37.70)
>DroSec_CAF1 14329 120 + 1
UGCACAUACUUGUGCUUGUUAAGAAUCGCCCGUGUCUGCAGCUUCUUGCCGCAGACAUUGCACUCAAACUUGGGCUCACCAUGUGUCUGGCUGUGCACCUGGAAAUUUUAUACAAAUUAC
.(((((....)))))((((..(((((..((.((((((((.((.....)).))))))))((((((((.((.(((.....)))...)).)))..)))))...))..)))))..))))..... ( -38.30)
>DroSim_CAF1 14522 120 + 1
UGCACAUACUUGUGCUUGUUAAGAAUCGCCCGUGUCUGCAGCUUCUUGCCGCAGACAUUGCACUCGAACUUGGGCUCACCGUGUGUCUGGCUGUGCACCUGGAAAUUUUAUACAAAUUUC
.(((((....)))))((((..(((((..((.((((((((.((.....)).))))))))(((((......(..(((.(.....).)))..)..)))))...))..)))))..))))..... ( -37.00)
>DroEre_CAF1 14342 120 + 1
UGCACGUACUUGUGCUUGUUAAGAAUCGCCCGAGUCUGCAGUUUUUUCCCACAGAUGUUGCACUCAAACCUGGGCUCACCAUGUGUCUGGCUGUGCACCUAGAAGUGAUAAGAGAAUUCC
.(((((....))))).........(((((..((((..((((..(((......)))..))))))))....((((((.(((((......))).)).)).)).))..)))))........... ( -26.20)
>DroYak_CAF1 14448 120 + 1
UGCACAUACUUGUGCUUGUUAAGAAUUGCCCGAGUCUGCAGUUUUUUGCCGCAGAUAUUACACUCAAACCUGGGCUCACCAUGUGUCUGGCUGUGCACCUAGAAAUGAUAUUAAAAUUAC
((((((..((((.......))))....(((.((((((((.((.....)).))))))...........((.(((.....))).)).)).)))))))))....................... ( -27.10)
>consensus
UGCACAUACUUGUGCUUGUUAAGAAUCGCCCGUGUCUGCAGCUUUUUGCCGCAGACAUUGCACUCAAACUUGGGCUCACCAUGUGUCUGGCUGUGCACCUGGAAAUUAUAUACAAAUUAC
.(((((....)))))............(((((.((((((.((.....)).)))))).(((....)))...)))))...(((.((((........)))).))).................. (-27.66 = -27.82 +   0.16)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,762,910 – 15,763,030
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.08
Mean single sequence MFE -37.60
Consensus MFE -32.58
Energy contribution -33.50
Covariance contribution 0.92
Combinations/Pair 1.09
Mean z-score -2.35
Structure conservation index 0.87
SVM decision value 2.82
SVM RNA-class probability 0.997206
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15762910 120 - 22407834
GAAAUUUGUAUACAAUUUCCAGGUGCACAGUCAGACACAUGGUGAGCCCAAGUUUGAGUGCAAUGUCUGCGGCAAAAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCA
.....((((....((((.((...(((((..((((((...(((.....))).))))))))))).((((((((((.....))))))))))..)).))))....))))(((((....))))). ( -41.40)
>DroSec_CAF1 14329 120 - 1
GUAAUUUGUAUAAAAUUUCCAGGUGCACAGCCAGACACAUGGUGAGCCCAAGUUUGAGUGCAAUGUCUGCGGCAAGAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCA
.....................((.((...((((......))))..))))..(((.((((((..((((((((((.....))))))))))...)).))))..)))..(((((....))))). ( -40.50)
>DroSim_CAF1 14522 120 - 1
GAAAUUUGUAUAAAAUUUCCAGGUGCACAGCCAGACACACGGUGAGCCCAAGUUCGAGUGCAAUGUCUGCGGCAAGAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCA
(((((((.....)))))))..((.((...(((........)))..))))..(((.((((((..((((((((((.....))))))))))...)).))))..)))..(((((....))))). ( -41.30)
>DroEre_CAF1 14342 120 - 1
GGAAUUCUCUUAUCACUUCUAGGUGCACAGCCAGACACAUGGUGAGCCCAGGUUUGAGUGCAACAUCUGUGGGAAAAAACUGCAGACUCGGGCGAUUCUUAACAAGCACAAGUACGUGCA
((((((......((((((((.(((.....)))))).....)))))((((((((......))....((((..(.......)..)))))).))))))))))......((((......)))). ( -33.50)
>DroYak_CAF1 14448 120 - 1
GUAAUUUUAAUAUCAUUUCUAGGUGCACAGCCAGACACAUGGUGAGCCCAGGUUUGAGUGUAAUAUCUGCGGCAAAAAACUGCAGACUCGGGCAAUUCUUAACAAGCACAAGUAUGUGCA
............(((..(((.((.((...((((......))))..)))))))..))).(((....(((((((.......))))))).....)))...........(((((....))))). ( -31.30)
>consensus
GAAAUUUGUAUAAAAUUUCCAGGUGCACAGCCAGACACAUGGUGAGCCCAAGUUUGAGUGCAAUGUCUGCGGCAAAAAGCUGCAGACACGGGCGAUUCUUAACAAGCACAAGUAUGUGCA
.....................((.((.((.(((......))))).))))..(((.((((((..((((((((((.....))))))))))...)).))))..)))..((((......)))). (-32.58 = -33.50 +   0.92)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:55 2006