Locus 6920

Sequence ID X_DroMel_CAF1
Location 17,315,759 – 17,315,897
Length 138
Max. P 0.997820
window11316 window11317 window11318

overview

Window 6

Location 17,315,759 – 17,315,871
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.57
Mean single sequence MFE -34.24
Consensus MFE -21.34
Energy contribution -22.22
Covariance contribution 0.88
Combinations/Pair 1.07
Mean z-score -2.17
Structure conservation index 0.62
SVM decision value 0.31
SVM RNA-class probability 0.682990
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17315759 112 + 22224390
UUUGCAA-GCAC---ACUCAGAUACAUAUAUCACUUUCCCAAAAGUUCCUAUUAGCUAGGUUCCACUGC----AGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAA
((..(..-.(((---.....((((....))))(((((....)))))......(((((((((.((((.((----((((....)))))).)))))))))))))......)))....)..)). ( -30.60)
>DroSec_CAF1 32930 108 + 1
UUUGCAA-GCAC---ACUCAGAU----AUAUCACUUUUCCAAGAGUUCCAGUUAGCUAGGUUCCACUGC----AGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAA
.......-....---........----...((((((((((..(.....).((.((((((((.((((.((----((((....)))))).)))))))))))))).....).))))))))).. ( -32.30)
>DroSim_CAF1 22381 108 + 1
UUUGCAA-GCAC---ACUCAGAU----AUAUCACUUUUCCAAGAGUUCCUGUUAGCUAGGUUCCACUGC----AGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAA
.......-....---........----...(((((((((.....((...(((.((((((((.((((.((----((((....)))))).)))))))))))))))))....))))))))).. ( -33.00)
>DroEre_CAF1 33957 112 + 1
UAUGCAUCAUAUGUUACUCAGAU----GUAACACUUUUCUACGAGUUCUUGCUAGCCAGGCUCCACUGC----AGCUACGUUGGUUUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAA
..((((((............)))----))).((((((((.((..((...(((.((((((((.((((.(.----((((.....)))).))))))))))))))))))..))))))))))... ( -41.50)
>DroYak_CAF1 23697 112 + 1
UUUGCAG-ACAA---GCUCAGAU----AUAUCACUUCUCUGGGAGUUCUCAUUAGCUAGGUUCCACUGCCGCCAGCUACCCAGUUUUCGUGGGCUUGGCUGCAACAAGUGAAAAGAGGAA
.((((((-.(((---(((((((.----...))......(((((.(....)..(((((.(((......)))...))))))))))......)))))))).))))))................ ( -33.80)
>consensus
UUUGCAA_GCAC___ACUCAGAU____AUAUCACUUUUCCAAGAGUUCCUGUUAGCUAGGUUCCACUGC____AGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAA
...............................((((((((.....(((.....(((((((((.((((.((....(((......))))).))))))))))))).)))....))))))))... (-21.34 = -22.22 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,315,795 – 17,315,897
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 93.63
Mean single sequence MFE -31.82
Consensus MFE -27.19
Energy contribution -27.88
Covariance contribution 0.69
Combinations/Pair 1.10
Mean z-score -2.47
Structure conservation index 0.85
SVM decision value 1.39
SVM RNA-class probability 0.949034
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17315795 102 + 22224390
AAAAGUUCCUAUUAGCUAGGUUCCACUGCAGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAAGAUAGCGAAAGAGAAAGGGGAAAGGG
.....(((((....((((..((((((((((((((((((.......))))..)))))))..(....)...)))))))..))))...........))))).... ( -32.96)
>DroSec_CAF1 32962 102 + 1
AAGAGUUCCAGUUAGCUAGGUUCCACUGCAGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAAGAUAGCGAAAGAGAAAGGGGAAAGGG
.....((((..((.((((..((((((((((((((((((.......))))..)))))))..(....)...)))))))..)))).......))..))))..... ( -32.10)
>DroSim_CAF1 22413 102 + 1
AAGAGUUCCUGUUAGCUAGGUUCCACUGCAGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAAGAUAGCGAAAGAGAAAGGGGAAAGGG
.....(((((.((.((((..((((((((((((((((((.......))))..)))))))..(....)...)))))))..))))........)).))))).... ( -33.70)
>DroEre_CAF1 33993 102 + 1
ACGAGUUCUUGCUAGCCAGGCUCCACUGCAGCUACGUUGGUUUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAAGAUAGCGAAAGAGAAAGGGGAAAGGG
.((...((((((.((((((((.((((.(.((((.....)))).)))))))))))))))..((..(....).)).))))...))................... ( -28.50)
>consensus
AAGAGUUCCUGUUAGCUAGGUUCCACUGCAGCUACCCAGUUGUCGUGGGCUUGGCUGCAACAAGUGAAAAGUGGAAGAUAGCGAAAGAGAAAGGGGAAAGGG
.....(((((.((.((((..((((((((((((((((((.......))))..)))))))..(....)...)))))))..)))).....))...)))))..... (-27.19 = -27.88 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,315,795 – 17,315,897
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 93.63
Mean single sequence MFE -26.97
Consensus MFE -26.30
Energy contribution -26.30
Covariance contribution 0.00
Combinations/Pair 1.15
Mean z-score -3.38
Structure conservation index 0.98
SVM decision value 2.94
SVM RNA-class probability 0.997820
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17315795 102 - 22224390
CCCUUUCCCCUUUCUCUUUCGCUAUCUUCCACUUUUCACUUGUUGCAGCCAAGCCCACGACAACUGGGUAGCUGCAGUGGAACCUAGCUAAUAGGAACUUUU
...........((((..((.((((..(((((((...........(((((...(((((.......))))).))))))))))))..)))).))..))))..... ( -29.40)
>DroSec_CAF1 32962 102 - 1
CCCUUUCCCCUUUCUCUUUCGCUAUCUUCCACUUUUCACUUGUUGCAGCCAAGCCCACGACAACUGGGUAGCUGCAGUGGAACCUAGCUAACUGGAACUCUU
...........((((..((.((((..(((((((...........(((((...(((((.......))))).))))))))))))..)))).))..))))..... ( -28.40)
>DroSim_CAF1 22413 102 - 1
CCCUUUCCCCUUUCUCUUUCGCUAUCUUCCACUUUUCACUUGUUGCAGCCAAGCCCACGACAACUGGGUAGCUGCAGUGGAACCUAGCUAACAGGAACUCUU
...........((((..((.((((..(((((((...........(((((...(((((.......))))).))))))))))))..)))).))..))))..... ( -28.60)
>DroEre_CAF1 33993 102 - 1
CCCUUUCCCCUUUCUCUUUCGCUAUCUUCCACUUUUCACUUGUUGCAGCCAAGCCCACGAAACCAACGUAGCUGCAGUGGAGCCUGGCUAGCAAGAACUCGU
.......................................((.(((((((((.((((((..................)))).)).))))).)))).))..... ( -21.47)
>consensus
CCCUUUCCCCUUUCUCUUUCGCUAUCUUCCACUUUUCACUUGUUGCAGCCAAGCCCACGACAACUGGGUAGCUGCAGUGGAACCUAGCUAACAGGAACUCUU
...........((((..((.((((..(((((((...........(((((...(((((.......))))).))))))))))))..)))).))..))))..... (-26.30 = -26.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:58 2006