Locus 7518

Sequence ID X_DroMel_CAF1
Location 18,781,415 – 18,781,583
Length 168
Max. P 0.973046
window12338 window12339 window12340

overview

Window 8

Location 18,781,415 – 18,781,525
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 91.67
Mean single sequence MFE -29.98
Consensus MFE -25.98
Energy contribution -25.91
Covariance contribution -0.06
Combinations/Pair 1.13
Mean z-score -1.89
Structure conservation index 0.87
SVM decision value 0.94
SVM RNA-class probability 0.886667
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18781415 110 + 22224390
AAAGGAGGACGCAAAAGGAACAAGUCCCAGGCAGAACCUUUAACGUUCUAUCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUAUCAAUGAGAU
...((((((((..(((((.....((.....))....)))))..)))))).)).......(((((((((......(((((....)))))((....)).....))))))))) ( -31.20)
>DroSec_CAF1 27900 110 + 1
AAAGGAGGACGCAAAAGGAACAAGUCCCAGGCAGAACCUUUAACGGCCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUGUCAAUGAGAU
...(((((.((..(((((.....((.....))....)))))..)).))).)).......(((((((((.(....(((((....)))))((....))...).))))))))) ( -33.20)
>DroEre_CAF1 26391 110 + 1
AAAGGAGGGCGGAAAAGGAACAAGUCCCAGGCAGAACCUUUAACGGUCUAUCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAU
...(((((.((..(((((.....((.....))....)))))..)).))).)).......(((((((((...((.(((((....)))))))...........))))))))) ( -29.74)
>DroYak_CAF1 26081 110 + 1
AAAGGCGGGCGGGAAAGGAACAAGUUUCAGGCAGAAUCUUUAACGGUCUACCGACAAAAAUCUCAUUGUCUCACGGAGCUCGUGGCCCUGCAAUCAAAUAUCAAUGAGAU
...((..(((.(..(((((....((.....))....)))))..).)))..)).......(((((((((...((((.....))))((...))..........))))))))) ( -25.80)
>consensus
AAAGGAGGACGCAAAAGGAACAAGUCCCAGGCAGAACCUUUAACGGUCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAU
...(((((.((..(((((.....((.....))....)))))..)).))).)).......(((((((((...((.(((((....)))))))...........))))))))) (-25.98 = -25.91 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,781,447 – 18,781,543
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 90.97
Mean single sequence MFE -26.80
Consensus MFE -22.74
Energy contribution -22.74
Covariance contribution 0.00
Combinations/Pair 1.17
Mean z-score -2.52
Structure conservation index 0.85
SVM decision value 1.70
SVM RNA-class probability 0.973046
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18781447 96 + 22224390
AGAACCUUUAACGUUCUAUCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUAUCAAUGAGAUGAAGGAGGUACUAUCAUU
((.((((((..((......))......(((((((((......(((((....)))))((....)).....)))))))))...)))))).))...... ( -27.10)
>DroSec_CAF1 27932 96 + 1
AGAACCUUUAACGGCCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGUAAUCAAAUGUCAAUGAGAUGAAGGACGUACUAUCAUU
....(((((..(((....)))......(((((((((.(....(((((....)))))((....))...).))))))))))))))............. ( -29.50)
>DroEre_CAF1 26423 96 + 1
AGAACCUUUAACGGUCUAUCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAUGGAGGCGGUACUAUCAUC
((.(((.......(((....)))....(((((...((((((.(((((....)))))((....))........)))))).)))))))).))...... ( -28.30)
>DroYak_CAF1 26113 96 + 1
AGAAUCUUUAACGGUCUACCGACAAAAAUCUCAUUGUCUCACGGAGCUCGUGGCCCUGCAAUCAAAUAUCAAUGAGAUGGAGGAGGCACUAUCAUC
.(..(((((..(((....)))......(((((((((...((((.....))))((...))..........))))))))).)))))..)......... ( -22.30)
>consensus
AGAACCUUUAACGGUCUACCGACAAAAGUCUCAUUGUCUCACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAUGAAGGAGGUACUAUCAUC
....(((((..(((....)))......(((((((((...((.(((((....)))))))...........))))))))))))))............. (-22.74 = -22.74 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,781,487 – 18,781,583
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 88.02
Mean single sequence MFE -19.75
Consensus MFE -14.95
Energy contribution -14.70
Covariance contribution -0.25
Combinations/Pair 1.16
Mean z-score -1.40
Structure conservation index 0.76
SVM decision value -0.03
SVM RNA-class probability 0.520617
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18781487 96 + 22224390
ACGGGCCACAUGGCCCUGUAAUCAAAUAUCAAUGAGAUGAAGGAGGUACUAUCAUUCUGCACACAGAAAAAUCGUUGUAAUUAACAUAAUUAACAC
..(((((....)))))(((..........((((((..(((((......)).)))(((((....)))))...))))))((((((...))))))))). ( -20.70)
>DroSec_CAF1 27972 96 + 1
ACGGGCCACAUGGCCCUGUAAUCAAAUGUCAAUGAGAUGAAGGACGUACUAUCAUUCUGCACACAGAAAAAUCGAUGUAAUUAACAUAGUUAACAC
..(((((....)))))..........(((.(((......((..((((.......(((((....)))))......))))..))......))).))). ( -19.12)
>DroEre_CAF1 26463 96 + 1
ACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAUGGAGGCGGUACUAUCAUCCUGCACCCGGAACAAUUGAUCAAAUUAACAUAAUUAACAU
..(((((....)))))...........((((((....(((..((((..........))))..))).....)))))).................... ( -23.40)
>DroYak_CAF1 26153 96 + 1
ACGGAGCUCGUGGCCCUGCAAUCAAAUAUCAAUGAGAUGGAGGAGGCACUAUCAUCCUGCACACGAAAAAAUUGAUCUAAUUAACAUAAUUAACAC
..(((....(((.((((.((.(((........)))..)).))).).))).....)))....................................... ( -15.80)
>consensus
ACGGGCCACAUGGCCCUGCAAUCAAAUAUCAAUGAGAUGAAGGAGGUACUAUCAUCCUGCACACAGAAAAAUCGAUCUAAUUAACAUAAUUAACAC
..(((((....)))))((((.(((........)))(((((((......)).))))).))))................................... (-14.95 = -14.70 +  -0.25)

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 12:41:00 2006