Locus 7220

Sequence ID 2L_DroMel_CAF1
Location 20,255,229 – 20,255,428
Length 199
Max. P 0.991921
window11550 window11551 window11552 window11553

overview

Window 0

Location 20,255,229 – 20,255,349
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -38.77
Consensus MFE -38.99
Energy contribution -38.77
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.28
Structure conservation index 1.01
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20255229 120 + 22407834
AGGAUUGCAUAAGCUAAAGCCACCUGGCCAUAUUUCAGUGGUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCAUACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAU
.((...((....)).....))((((((((((......)))).(((((.(.((((.(((...((.(((.((((....))))))))).)))...)).)).)))))))))))).......... ( -37.50)
>DroSec_CAF1 16837 120 + 1
AGGAUUGCAUAAGCUAAAGCCACCUGGCCAUAUUUCAGUGGUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCACACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAU
.((...((....)).....))((((((((((......)))).(((((.(.((((.(((...((.(((.((((....))))))))).)))...)).)).)))))))))))).......... ( -39.40)
>DroSim_CAF1 15261 120 + 1
AGGAUUGCAUAAGCUAAAGCCACCUGGCCAUAUUUCAGUGGUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCACACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAU
.((...((....)).....))((((((((((......)))).(((((.(.((((.(((...((.(((.((((....))))))))).)))...)).)).)))))))))))).......... ( -39.40)
>consensus
AGGAUUGCAUAAGCUAAAGCCACCUGGCCAUAUUUCAGUGGUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCACACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAU
.((...((....)).....))((((((((((......)))).(((((.(.((((.(((...((.(((.((((....))))))))).)))...)).)).)))))))))))).......... (-38.99 = -38.77 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,255,269 – 20,255,389
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 99.44
Mean single sequence MFE -45.77
Consensus MFE -45.99
Energy contribution -45.77
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -3.73
Structure conservation index 1.00
SVM decision value 2.30
SVM RNA-class probability 0.991921
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20255269 120 + 22407834
GUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCAUACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGA
((((.((((((...((((((......))))))....)))))).))))......(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))). ( -44.50)
>DroSec_CAF1 16877 120 + 1
GUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCACACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGA
((((.((((((...((((((......))))))....)))))).))))......(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))). ( -46.40)
>DroSim_CAF1 15301 120 + 1
GUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCACACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGA
((((.((((((...((((((......))))))....)))))).))))......(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))). ( -46.40)
>consensus
GUGCCUGUGGUGGUGUUAGUGGCUGUGCUGGCUUAAGCCACACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGA
((((.((((((...((((((......))))))....)))))).))))......(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))). (-45.99 = -45.77 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,255,269 – 20,255,389
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 99.44
Mean single sequence MFE -31.79
Consensus MFE -30.79
Energy contribution -31.13
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.57
Structure conservation index 0.97
SVM decision value 1.51
SVM RNA-class probability 0.960478
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20255269 120 - 22407834
UCUCAGCCAGUAUCCAAGGCAACAAAUUGACAAAAAUUGAAUAAAAUAAUACCCGGGCCUGGCUGAGUUUUUCAUGCGUAUGGCUUAAGCCAGCACAGCCACUAACACCACCACAGGCAC
.(((((((((..(((..(....).((((......))))................))).))))))))).......((.((.((((....)))))).))(((...............))).. ( -30.26)
>DroSec_CAF1 16877 120 - 1
UCUCAGCCAGUAUCCAAGGCAACAAAUUGACAAAAAUUGAAUAAAAUAAUACCCGGGCCUGGCUGAGUUUUUCAUGCGUGUGGCUUAAGCCAGCACAGCCACUAACACCACCACAGGCAC
.(((((((((..(((..(....).((((......))))................))).)))))))))..........(((((((....)))).))).(((...............))).. ( -32.56)
>DroSim_CAF1 15301 120 - 1
UCUCAGCCAGUAUCCAAGGCAACAAAUUGACAAAAAUUGAAUAAAAUAAUACCCGGGCCUGGCUGAGUUUUUCAUGCGUGUGGCUUAAGCCAGCACAGCCACUAACACCACCACAGGCAC
.(((((((((..(((..(....).((((......))))................))).)))))))))..........(((((((....)))).))).(((...............))).. ( -32.56)
>consensus
UCUCAGCCAGUAUCCAAGGCAACAAAUUGACAAAAAUUGAAUAAAAUAAUACCCGGGCCUGGCUGAGUUUUUCAUGCGUGUGGCUUAAGCCAGCACAGCCACUAACACCACCACAGGCAC
.(((((((((..(((..(....).((((......))))................))).)))))))))..........(((((((....)))).))).(((...............))).. (-30.79 = -31.13 +   0.33)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,255,309 – 20,255,428
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.09
Mean single sequence MFE -41.33
Consensus MFE -38.42
Energy contribution -38.20
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.87
Structure conservation index 0.93
SVM decision value 1.64
SVM RNA-class probability 0.969608
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20255309 119 + 22407834
UACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGAUCGGGGUGGGCAGC-UUGAGUGGGACUAAAACCAUUCAAU
..(((.(((....(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))).)))..)))......-((((((((........)))))))). ( -38.40)
>DroSec_CAF1 16917 119 + 1
CACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGAUCGGGGUGGGCCCCGGUGAGUGGGAGUA-AACCAUUCAAU
.............(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...)))))))))(((((((....)))))))((((((.....-..))))))... ( -46.30)
>DroSim_CAF1 15341 118 + 1
CACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGAUCGGGGUGGGCCGC-UUGAGUGGGAGUA-AACCAUUCAAU
...((........(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))).....((....))))-((((((((.....-..)))))))). ( -39.30)
>consensus
CACGCAUGAAAAACUCAGCCAGGCCCGGGUAUUAUUUUAUUCAAUUUUUGUCAAUUUGUUGCCUUGGAUACUGGCUGAGAUCGGGGUGGGCCGC_UUGAGUGGGAGUA_AACCAUUCAAU
(((.(.(((....(((((((((.((.(((((.((..((...((.....))..))..)).))))).))...))))))))).)))).)))........(((((((........))))))).. (-38.42 = -38.20 +  -0.22)

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 12:30:44 2006