Locus 2922

Sequence ID 2L_DroMel_CAF1
Location 8,403,720 – 8,403,814
Length 94
Max. P 0.988179
window4634 window4635

overview

Window 4

Location 8,403,720 – 8,403,814
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 76.09
Mean single sequence MFE -41.15
Consensus MFE -31.02
Energy contribution -32.50
Covariance contribution 1.48
Combinations/Pair 1.17
Mean z-score -3.46
Structure conservation index 0.75
SVM decision value 2.06
SVM RNA-class probability 0.986992
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8403720 94 + 22407834
GCUGGCGCGUUU-------UGAAAAGCUAAGAAAAUUUGGGAAAUGCCGCCGCAGU--CUUGUCGCAUUUGCGGCGGCGAUGCGUUCGCCUGUGCCAGUGUGU
((((((((((((-------....))))...........(((((.(((((((((((.--..........))))))))))).....))).)).)))))))).... ( -38.00)
>DroVir_CAF1 3916 89 + 1
ACAACAACCCGAAGCCGUGCGUACAAU--UU-AGAUUUGUGAAAUGCCGUCGCAGUCUCGAGAUGCGUU-------GCGCUGCUU-UGAUUGUAUUU---UGC
...((((..((((((.(((((.((.((--((-(((((.((((.......)))))))))..))))..)))-------)))).))))-)).))))....---... ( -23.60)
>DroSec_CAF1 1839 95 + 1
GCUGGCACGUU--------UGAAAAGUUAUGAAAAUUUGCGAAAUGCCGCCGCAGUUGCUUGUCGCAUUUGCGGCGGCGAUGCGUUCGCCUGUGCCAGUGUGU
((((((((...--------....(((((.....)))))(((((.(((((((((((.(((.....))).))))))))))).....)))))..)))))))).... ( -45.10)
>DroSim_CAF1 1816 95 + 1
GCUGGCACGUU--------UGAGAAGUUAUGAAAAUUUGCGAAAUGCCGCCGCAGUUGCUUGUCGCAUUUGCGGCGGCGAUGCGUUCGCCUGUGCCAGUGUGU
((((((((...--------....(((((.....)))))(((((.(((((((((((.(((.....))).))))))))))).....)))))..)))))))).... ( -45.20)
>DroEre_CAF1 1890 94 + 1
GCUGGCGCGUG--------UGAAAAGCUCCGAAAAU-UGUGAAAUGCCGCCGCAGUUGCUCGUCGCAUUUGCGGCGGCGAUGCGUUCGCCUGUGCCAGUGUGU
(((((((((.(--------((((..(((((((...)-)).))..(((((((((((.(((.....))).)))))))))))..)).))))).))))))))).... ( -47.20)
>DroYak_CAF1 1887 94 + 1
GCUGGCGCGUU--------UGAAAAGCUUCGAAAAU-UGCGAAAUGCCGCCGCAGUUGCUCGUCGCAUUUGCGGCGGCGAUGCGUUCGCCUGUGCCAGUGUGU
((((((((.((--------((((....))))))...-.(((((.(((((((((((.(((.....))).))))))))))).....)))))..)))))))).... ( -47.80)
>consensus
GCUGGCACGUU________UGAAAAGCUAUGAAAAUUUGCGAAAUGCCGCCGCAGUUGCUUGUCGCAUUUGCGGCGGCGAUGCGUUCGCCUGUGCCAGUGUGU
((((((((....................................(((((((((((.(((.....))).)))))))))))..((....))..)))))))).... (-31.02 = -32.50 +   1.48)

alignment

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secondary structure

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dotplot

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Window 5

Location 8,403,720 – 8,403,814
Length 94
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 76.09
Mean single sequence MFE -34.27
Consensus MFE -25.66
Energy contribution -27.22
Covariance contribution 1.56
Combinations/Pair 1.15
Mean z-score -3.37
Structure conservation index 0.75
SVM decision value 2.11
SVM RNA-class probability 0.988179
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8403720 94 - 22407834
ACACACUGGCACAGGCGAACGCAUCGCCGCCGCAAAUGCGACAAG--ACUGCGGCGGCAUUUCCCAAAUUUUCUUAGCUUUUCA-------AAACGCGCCAGC
.....(((((.(..((....))...(((((((((....(.....)--..)))))))))..........................-------....).))))). ( -30.80)
>DroVir_CAF1 3916 89 - 1
GCA---AAAUACAAUCA-AAGCAGCGC-------AACGCAUCUCGAGACUGCGACGGCAUUUCACAAAUCU-AA--AUUGUACGCACGGCUUCGGGUUGUUGU
...---....((((((.-((((.((((-------..((((((....)).))))...)).....((((....-..--.))))..))...))))..))))))... ( -19.10)
>DroSec_CAF1 1839 95 - 1
ACACACUGGCACAGGCGAACGCAUCGCCGCCGCAAAUGCGACAAGCAACUGCGGCGGCAUUUCGCAAAUUUUCAUAACUUUUCA--------AACGUGCCAGC
.....(((((((..((....))...(((((((((..(((.....)))..)))))))))..........................--------...))))))). ( -40.20)
>DroSim_CAF1 1816 95 - 1
ACACACUGGCACAGGCGAACGCAUCGCCGCCGCAAAUGCGACAAGCAACUGCGGCGGCAUUUCGCAAAUUUUCAUAACUUCUCA--------AACGUGCCAGC
.....(((((((..((....))...(((((((((..(((.....)))..)))))))))..........................--------...))))))). ( -40.20)
>DroEre_CAF1 1890 94 - 1
ACACACUGGCACAGGCGAACGCAUCGCCGCCGCAAAUGCGACGAGCAACUGCGGCGGCAUUUCACA-AUUUUCGGAGCUUUUCA--------CACGCGCCAGC
.....(((((.(..(.(((.((...(((((((((..(((.....)))..)))))))))..(((...-......)))))..))).--------)..).))))). ( -36.60)
>DroYak_CAF1 1887 94 - 1
ACACACUGGCACAGGCGAACGCAUCGCCGCCGCAAAUGCGACGAGCAACUGCGGCGGCAUUUCGCA-AUUUUCGAAGCUUUUCA--------AACGCGCCAGC
.....(((((....(((((...((.(((((((((..(((.....)))..)))))))))))))))).-.........((......--------...))))))). ( -38.70)
>consensus
ACACACUGGCACAGGCGAACGCAUCGCCGCCGCAAAUGCGACAAGCAACUGCGGCGGCAUUUCGCAAAUUUUCAUAACUUUUCA________AACGCGCCAGC
.....(((((.(..((....))...(((((((((..(((.....)))..))))))))).....................................).))))). (-25.66 = -27.22 +   1.56)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:33 2006