Locus 6604

Sequence ID 2R_DroMel_CAF1
Location 20,687,307 – 20,687,407
Length 100
Max. P 0.646060
window10506 window10507

overview

Window 6

Location 20,687,307 – 20,687,407
Length 100
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 83.00
Mean single sequence MFE -18.55
Consensus MFE -14.89
Energy contribution -14.08
Covariance contribution -0.80
Combinations/Pair 1.32
Mean z-score -1.59
Structure conservation index 0.80
SVM decision value 0.23
SVM RNA-class probability 0.646060
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20687307 100 + 20766785
AAACUUGCAUCAAUUUGACCACAUGCCACUUAGCACAUGGUCUGGUAUGCGGACUACAAAACCCUAGCCCCAACUGCUGACAUCCUUAACUUCUCUGGAC
....((((((..((..(((((..(((......)))..)))))..))))))))............((((.......))))...(((...........))). ( -18.30)
>DroSec_CAF1 120808 100 + 1
AAACUUGCAUCAAUUCGACCACAUGCCACUUAGCACAUGGUCUGGUAUGCGGACUACAAAAUCCUAGCCCCAACUGCUCACAUCCUUAACUUCUCUGGAC
......(((.......(((((..(((......)))..)))))(((...(((((........)))..)).)))..))).....(((...........))). ( -17.90)
>DroSim_CAF1 122284 100 + 1
AAACUUGCAUCAAUUCGACCACAUGCCACUUAGCACAUGGUCUGGUAUGCGGACUACAAAAUCCUAGCCCCAACUGCUCACAUCCUUAACUUCUCUGGAC
......(((.......(((((..(((......)))..)))))(((...(((((........)))..)).)))..))).....(((...........))). ( -17.90)
>DroEre_CAF1 161505 99 + 1
AAACUUGCAUCAAUUCGACCACAUGCCACUUAGCACAUGGU-UGGUAUGCGGACUACAAAAUCCCAUCCCCAACCACUCACAUCCCCAACUUCUUUGGAC
......((((....(((((((..(((......)))..))))-))).))))(((........))).....................((((.....)))).. ( -18.50)
>DroYak_CAF1 125297 100 + 1
AAACUUGCAUCAAUUCGACCACAUGCCACUUAGCACAUGGUUUGGUAUGCGGACUACAAAAUCCCAACCCCAACCACUCACAUCCCAAACUUCUUUGGAC
......((((..((..(((((..(((......)))..)))))..))))))(((........)))....................(((((....))))).. ( -17.10)
>DroAna_CAF1 128424 89 + 1
AAACUUGUGGCCGCUUGACCACAUGCCGCUUAGCACAUGGUUUCGCCUUCGGACCCGACUACUCCAACGCCCA--UCUCGCAUCCU---------UGGGU
......((((..((..(((((..(((......)))..)))))..))..(((....)))))))......(((((--...........---------))))) ( -21.60)
>consensus
AAACUUGCAUCAAUUCGACCACAUGCCACUUAGCACAUGGUCUGGUAUGCGGACUACAAAAUCCCAGCCCCAACUGCUCACAUCCUUAACUUCUCUGGAC
....((((((..((..(((((..(((......)))..)))))..))))))))..............................(((...........))). (-14.89 = -14.08 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,687,307 – 20,687,407
Length 100
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 83.00
Mean single sequence MFE -30.08
Consensus MFE -21.09
Energy contribution -21.07
Covariance contribution -0.03
Combinations/Pair 1.24
Mean z-score -1.71
Structure conservation index 0.70
SVM decision value 0.09
SVM RNA-class probability 0.577068
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20687307 100 - 20766785
GUCCAGAGAAGUUAAGGAUGUCAGCAGUUGGGGCUAGGGUUUUGUAGUCCGCAUACCAGACCAUGUGCUAAGUGGCAUGUGGUCAAAUUGAUGCAAGUUU
((((...........))))...(((.....((((((.(....).))))))((((....(((((((((((....)))))))))))......))))..))). ( -30.20)
>DroSec_CAF1 120808 100 - 1
GUCCAGAGAAGUUAAGGAUGUGAGCAGUUGGGGCUAGGAUUUUGUAGUCCGCAUACCAGACCAUGUGCUAAGUGGCAUGUGGUCGAAUUGAUGCAAGUUU
((((...........))))..((((.....((((((.(....).))))))((((....(((((((((((....)))))))))))......))))..)))) ( -32.70)
>DroSim_CAF1 122284 100 - 1
GUCCAGAGAAGUUAAGGAUGUGAGCAGUUGGGGCUAGGAUUUUGUAGUCCGCAUACCAGACCAUGUGCUAAGUGGCAUGUGGUCGAAUUGAUGCAAGUUU
((((...........))))..((((.....((((((.(....).))))))((((....(((((((((((....)))))))))))......))))..)))) ( -32.70)
>DroEre_CAF1 161505 99 - 1
GUCCAAAGAAGUUGGGGAUGUGAGUGGUUGGGGAUGGGAUUUUGUAGUCCGCAUACCA-ACCAUGUGCUAAGUGGCAUGUGGUCGAAUUGAUGCAAGUUU
.(((((.....)))))(((....((((((((..((((((((....))))).))).)))-)))))(((((....)))))...)))................ ( -29.00)
>DroYak_CAF1 125297 100 - 1
GUCCAAAGAAGUUUGGGAUGUGAGUGGUUGGGGUUGGGAUUUUGUAGUCCGCAUACCAAACCAUGUGCUAAGUGGCAUGUGGUCGAAUUGAUGCAAGUUU
.((((((....)))))).(((...(((((.(((((((((((....))))).)).)))..((((((((((....))))))))))).)))))..)))..... ( -28.00)
>DroAna_CAF1 128424 89 - 1
ACCCA---------AGGAUGCGAGA--UGGGCGUUGGAGUAGUCGGGUCCGAAGGCGAAACCAUGUGCUAAGCGGCAUGUGGUCAAGCGGCCACAAGUUU
.....---------.....((..(.--(((.((((.((((..(((....)))..))....(((((((((....))))))))))).)))).))))..)).. ( -27.90)
>consensus
GUCCAGAGAAGUUAAGGAUGUGAGCAGUUGGGGCUAGGAUUUUGUAGUCCGCAUACCAGACCAUGUGCUAAGUGGCAUGUGGUCGAAUUGAUGCAAGUUU
((((...........))))...........((((((.(....).))))))((((.....((((((((((....)))))))))).......))))...... (-21.09 = -21.07 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:49 2006