Locus 5270

Sequence ID 2R_DroMel_CAF1
Location 17,131,206 – 17,131,366
Length 160
Max. P 0.994468
window8424 window8425 window8426

overview

Window 4

Location 17,131,206 – 17,131,326
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.83
Mean single sequence MFE -45.22
Consensus MFE -39.74
Energy contribution -39.82
Covariance contribution 0.08
Combinations/Pair 1.07
Mean z-score -1.56
Structure conservation index 0.88
SVM decision value 1.06
SVM RNA-class probability 0.909094
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17131206 120 + 20766785
AGGAUAGUAGUUUCGGGGAGUAGCUUAGGCGACUGGCCUCCAGUCCCGGCGUCGUGGAGGACUCAUCCUUAAACAGGAUGGUGGGUGAGUUGUGCUCGCUCUUCGACAAGUACAAGCUGU
......(((.((((((((((((((....((((((.(((..(((((((.((...)).).)))))((((((.....)))))))..))).))))))))).))))))))).)).)))....... ( -46.80)
>DroSec_CAF1 67094 120 + 1
AGGAUAGUAGUUUCGGGGAGUAGCUUAGGCGACUGGCCUCCAGUCCCGGCGUCGUGGAGGACUCAUCCUUAAACAGGAUGGUGGGUGAGUUGUGCUCGCUCUUAGACAAGUACAAGCUGU
......(((.((((..((((((((....((((((.(((..(((((((.((...)).).)))))((((((.....)))))))..))).))))))))).)))))..)).)).)))....... ( -42.40)
>DroSim_CAF1 57939 120 + 1
AGGAUAGUAGUUUCGGGGAGUAGCUUAGGCGACUGGCCUCCAGUCCCGGCGUCGUGGAGGACUCAUCCUUAAACAGGAUGGUGGGUGAGUUGUGCUCGCUCUUCGACAAGUACAAGCUGU
......(((.((((((((((((((....((((((.(((..(((((((.((...)).).)))))((((((.....)))))))..))).))))))))).))))))))).)).)))....... ( -46.80)
>DroEre_CAF1 72616 120 + 1
AGGAUAGCAGUUUCGGGGAGUAGCUCAGGCGACUGGCCUCCAGUCCCGGCGUCGUAGAGGACUCAUCCUUAAACAGGAUGGUCGGUGAGUUAUGCUCGCUCUUUGACAAGUACAAGCUGU
......((((((((((((.(..((.(((....)))))..)...)))))..((((.(((.(((.((((((.....))))))))).(((((.....)))))))).))))......))))))) ( -45.10)
>DroYak_CAF1 74513 120 + 1
AGGACAACAGUUUUGGGGAGUAACUCAGGCGACUGGCCUCCAGUCCCGGCGUCGUCGAGGACUCAUCCUUAAACAGGAUGGUGGGUGAGUUGUGCUCGCUCUUCGACAAGUACAAGCUGU
......(((((((((((......))))((.((((((...))))))))......(((((((((.((((((.....)))))))).((((((.....)))))))))))))......))))))) ( -45.00)
>consensus
AGGAUAGUAGUUUCGGGGAGUAGCUUAGGCGACUGGCCUCCAGUCCCGGCGUCGUGGAGGACUCAUCCUUAAACAGGAUGGUGGGUGAGUUGUGCUCGCUCUUCGACAAGUACAAGCUGU
.......(((((((((((((((((....((((((.(((..(((((((.((...)).).)))))((((((.....)))))))..))).))))))))).)))))))))........))))). (-39.74 = -39.82 +   0.08)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,131,206 – 17,131,326
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.83
Mean single sequence MFE -35.06
Consensus MFE -32.38
Energy contribution -32.38
Covariance contribution -0.00
Combinations/Pair 1.06
Mean z-score -1.21
Structure conservation index 0.92
SVM decision value 0.38
SVM RNA-class probability 0.712566
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17131206 120 - 20766785
ACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUGGAGGCCAGUCGCCUAAGCUACUCCCCGAAACUACUAUCCU
..((((((.....((((..(((.(((.....)))....((((((((.....)))))).)).)))..))))...((((((((...)))))).))))))))..................... ( -34.70)
>DroSec_CAF1 67094 120 - 1
ACAGCUUGUACUUGUCUAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUGGAGGCCAGUCGCCUAAGCUACUCCCCGAAACUACUAUCCU
...((((((.(((....))).)))))).............((((((.....)))))).(((......)))..(((((((((...))))))((....))......)))............. ( -31.80)
>DroSim_CAF1 57939 120 - 1
ACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUGGAGGCCAGUCGCCUAAGCUACUCCCCGAAACUACUAUCCU
..((((((.....((((..(((.(((.....)))....((((((((.....)))))).)).)))..))))...((((((((...)))))).))))))))..................... ( -34.70)
>DroEre_CAF1 72616 120 - 1
ACAGCUUGUACUUGUCAAAGAGCGAGCAUAACUCACCGACCAUCCUGUUUAAGGAUGAGUCCUCUACGACGCCGGGACUGGAGGCCAGUCGCCUGAGCUACUCCCCGAAACUGCUAUCCU
..(((((......(((..((((.(((.....)))...(((((((((.....)))))).)))))))..)))...((((((((...)))))).)).)))))..................... ( -36.50)
>DroYak_CAF1 74513 120 - 1
ACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCGACGACGCCGGGACUGGAGGCCAGUCGCCUGAGUUACUCCCCAAAACUGUUGUCCU
...((((((.(((....))).))))))..(((((..((..((((((.....))))))(((((.((.......)))))))))((((.....)))))))))..................... ( -37.60)
>consensus
ACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUGGAGGCCAGUCGCCUAAGCUACUCCCCGAAACUACUAUCCU
..((((((.....((((..(((.(((.....)))....((((((((.....)))))).)).)))..))))...((((((((...)))))).))))))))..................... (-32.38 = -32.38 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,131,246 – 17,131,366
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -42.26
Consensus MFE -38.02
Energy contribution -37.38
Covariance contribution -0.64
Combinations/Pair 1.18
Mean z-score -1.90
Structure conservation index 0.90
SVM decision value 2.48
SVM RNA-class probability 0.994468
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17131246 120 - 20766785
ACUAUGCCCAAGGGCGGGUCAGUCGACCAAGACCUAGAGAACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUG
.....(((....)))((((..(((......)))...(((....((((((.(((....))).))))))....)))))))..((((((.....))))))((((((..........)))))). ( -40.50)
>DroSec_CAF1 67134 120 - 1
ACCAUGCCCAAGGGCGGGUCAGUCGAUCAAGGCCUGGAGAACAGCUUGUACUUGUCUAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUG
(((.((((....)))))))(((((......(((.(((((.((.((((((.(((....))).)))))).............((((((.....)))))).)).)))))....)))..))))) ( -42.80)
>DroSim_CAF1 57979 120 - 1
ACCAUGCCCAAGGGCGGGUCAGUCGAUCAAGACAUGGAGAACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUG
.((..(((....)))(((((.(((......))).(((((.((.((((((.(((....))).)))))).............((((((.....)))))).)).))))).))).))))..... ( -44.70)
>DroEre_CAF1 72656 120 - 1
ACCAUGCCUAAGGGCGGAUCUGUCGAUCAAGAUCUGGAGAACAGCUUGUACUUGUCAAAGAGCGAGCAUAACUCACCGACCAUCCUGUUUAAGGAUGAGUCCUCUACGACGCCGGGACUG
......(((...(((((((((........)))))(((((....((((((.(((....))).))))))..........(((((((((.....)))))).))))))))...))))))).... ( -41.10)
>DroYak_CAF1 74553 120 - 1
ACCAUACCUAAGGGUGGAUCGGUCGAUCAAGACCUGGAGAACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCGACGACGCCGGGACUG
...........((((((...((((......)))).........((((((.(((....))).)))))).....))))))..((((((.....))))))(((((.((.......))))))). ( -42.20)
>consensus
ACCAUGCCCAAGGGCGGGUCAGUCGAUCAAGACCUGGAGAACAGCUUGUACUUGUCGAAGAGCGAGCACAACUCACCCACCAUCCUGUUUAAGGAUGAGUCCUCCACGACGCCGGGACUG
......(((...((((((((....))))....(.(((((.((.((((((.(((....))).)))))).............((((((.....)))))).)).))))).).))))))).... (-38.02 = -37.38 +  -0.64)

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 11:40:50 2006