Locus 6881

Sequence ID 3R_DroMel_CAF1
Location 18,191,297 – 18,191,388
Length 91
Max. P 0.966587
window11170 window11171

overview

Window 0

Location 18,191,297 – 18,191,388
Length 91
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 80.69
Mean single sequence MFE -30.68
Consensus MFE -28.56
Energy contribution -28.57
Covariance contribution 0.00
Combinations/Pair 1.24
Mean z-score -2.30
Structure conservation index 0.93
SVM decision value 1.60
SVM RNA-class probability 0.966587
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18191297 91 + 27905053
UGGUGCCGCACAGAGUGCAGUUGGAGAUGUAGUCGCUGUCCCGCAGCCACUGCAGAUACGACUGCACAAUGCACUGAAA--AAG-AGU--GGAU----------AU
.....((((.((..(((((((((....((((((.((((.....)))).))))))....)))))))))..))..((....--.))-.))--))..----------.. ( -36.50)
>DroSec_CAF1 4311 91 + 1
UGGUGCCGCACAGAGUGCAGUUGGAGAUGUAGUCGCUGUCCCGCAGCCACUGCAGAUACGACUGCACAAUGCACUGGAA--AAG-AGU--GAAU----------AU
.((((((.....).(((((((((....((((((.((((.....)))).))))))....)))))))))...)))))....--...-...--....----------.. ( -35.30)
>DroSim_CAF1 4327 91 + 1
UGGUGCCGCACAGAGUGCAGUUGGAGAUGUAGUCGCUGUCCCGCAGCCACUGCAGAUACGACUGCACAAUGCACUGGAA--AAG-AGU--GAAU----------AU
.((((((.....).(((((((((....((((((.((((.....)))).))))))....)))))))))...)))))....--...-...--....----------.. ( -35.30)
>DroYak_CAF1 4518 92 + 1
UGGUGCUGCACAGAGUGCAGUUGGAGAUGUAGUCGCUGUCCCGCAGCCACUGCAGAUACGACUGCACAAUGCACUGGAA--AACAAAU--UAAU----------GU
.(((((........(((((((((....((((((.((((.....)))).))))))....)))))))))...)))))....--.......--....----------.. ( -34.80)
>DroMoj_CAF1 4256 101 + 1
CGGUGCCACAAAGCGUACAAUUGGAUAUAUAGUCGCUAUCACGUAGCCAUUGCAGAUACGAUUGCACUAUGCACUGCAA--GAA-AUU--GAUUAACAGUGAAAAU
.(((((.....((((.((.((.......)).))))))....((((((....))...))))...)))))...((((((((--...-.))--).....)))))..... ( -19.30)
>DroPer_CAF1 4776 95 + 1
AAGUCCCACACAGAUUGCAGUUGGAAAUGUAGUCGCUGUCACGAAGCCACUGCAGAUAGGAUUGCACUAUGCACUGCGGAAUAG-AUCCGAAAU----------AC
..........((...(((((((..(..((((((.(((.......))).))))))..)..)))))))...)).....((((....-.))))....----------.. ( -22.90)
>consensus
UGGUGCCGCACAGAGUGCAGUUGGAGAUGUAGUCGCUGUCCCGCAGCCACUGCAGAUACGACUGCACAAUGCACUGGAA__AAG_AGU__GAAU__________AU
.((((((.....).(((((((((....((((((.((((.....)))).))))))....)))))))))...)))))............................... (-28.56 = -28.57 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 18,191,297 – 18,191,388
Length 91
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 80.69
Mean single sequence MFE -25.97
Consensus MFE -21.55
Energy contribution -21.30
Covariance contribution -0.25
Combinations/Pair 1.29
Mean z-score -1.23
Structure conservation index 0.83
SVM decision value 0.18
SVM RNA-class probability 0.623262
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18191297 91 - 27905053
AU----------AUCC--ACU-CUU--UUUCAGUGCAUUGUGCAGUCGUAUCUGCAGUGGCUGCGGGACAGCGACUACAUCUCCAACUGCACUCUGUGCGGCACCA
..----------....--...-...--.....(..((..(((((((.(....((.(((.((((.....)))).))).))....).)))))))..))..)....... ( -27.40)
>DroSec_CAF1 4311 91 - 1
AU----------AUUC--ACU-CUU--UUCCAGUGCAUUGUGCAGUCGUAUCUGCAGUGGCUGCGGGACAGCGACUACAUCUCCAACUGCACUCUGUGCGGCACCA
..----------....--...-...--..((.(..((..(((((((.(....((.(((.((((.....)))).))).))....).)))))))..))..)))..... ( -27.90)
>DroSim_CAF1 4327 91 - 1
AU----------AUUC--ACU-CUU--UUCCAGUGCAUUGUGCAGUCGUAUCUGCAGUGGCUGCGGGACAGCGACUACAUCUCCAACUGCACUCUGUGCGGCACCA
..----------....--...-...--..((.(..((..(((((((.(....((.(((.((((.....)))).))).))....).)))))))..))..)))..... ( -27.90)
>DroYak_CAF1 4518 92 - 1
AC----------AUUA--AUUUGUU--UUCCAGUGCAUUGUGCAGUCGUAUCUGCAGUGGCUGCGGGACAGCGACUACAUCUCCAACUGCACUCUGUGCAGCACCA
..----------....--.......--.....(..((..(((((((.(....((.(((.((((.....)))).))).))....).)))))))..))..)....... ( -27.40)
>DroMoj_CAF1 4256 101 - 1
AUUUUCACUGUUAAUC--AAU-UUC--UUGCAGUGCAUAGUGCAAUCGUAUCUGCAAUGGCUACGUGAUAGCGACUAUAUAUCCAAUUGUACGCUUUGUGGCACCG
.....((((((.....--...-...--..))))))(((..((((........)))))))((((((....((((((.............)).)))).)))))).... ( -21.34)
>DroPer_CAF1 4776 95 - 1
GU----------AUUUCGGAU-CUAUUCCGCAGUGCAUAGUGCAAUCCUAUCUGCAGUGGCUUCGUGACAGCGACUACAUUUCCAACUGCAAUCUGUGUGGGACUU
((----------(((.((((.-....)))).))))).........((((((.((((((((..((((....))))........)).))))))......))))))... ( -23.90)
>consensus
AU__________AUUC__ACU_CUU__UUCCAGUGCAUUGUGCAGUCGUAUCUGCAGUGGCUGCGGGACAGCGACUACAUCUCCAACUGCACUCUGUGCGGCACCA
.................................(((((.(((((((......((.(((.((((.....)))).))).))......)))))))...)))))...... (-21.55 = -21.30 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:21 2006