Locus 3023

Sequence ID 2L_DroMel_CAF1
Location 8,617,941 – 8,618,038
Length 97
Max. P 0.975423
window4810 window4811

overview

Window 0

Location 8,617,941 – 8,618,038
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.41
Mean single sequence MFE -27.57
Consensus MFE -18.17
Energy contribution -18.47
Covariance contribution 0.31
Combinations/Pair 1.21
Mean z-score -2.59
Structure conservation index 0.66
SVM decision value 1.74
SVM RNA-class probability 0.975020
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8617941 97 + 22407834
-U-------------UUUUGUUGCUUC-----CACAACUUUGGGGCAAAGCUGCAGAAUUUAUUGCUUUCGAAAUGCGGUUGCGCAUAAAUGUGCAGCAAGCAAA----ACAUGAACAAU
-.-------------((((((((((.(-----((......))))))...((((((..(((((((((..(((.....)))..))).)))))).)))))).))))))----).......... ( -28.90)
>DroVir_CAF1 61383 90 + 1
UU-------------UUUUGUUGC-----------------AGCGCAAAGCUGCAAAAUUUAUUGCUUUUGAAAUGUGGCUGCGCAUAAAUGUGCAGCAGAACAACUGCAAACAAACAGG
..-------------.((((((((-----------------(((.....)))))).......((((..(((.......((((((((....))))))))....)))..))))))))).... ( -29.60)
>DroSec_CAF1 46241 97 + 1
-U-------------UUUUGUUGCUUC-----CACAACUUUGGGGCAAAGCUGCAGAAUUUAUUGCUUUAGAAAUGCGGUUGCGCAUAAAUGUGCAGCAAGCAAA----ACAUGAACAAU
-.-------------((((((((((.(-----((......))))))...((((((.(.((((......)))).(((((....)))))...).)))))).))))))----).......... ( -25.30)
>DroEre_CAF1 47871 97 + 1
-U-------------UUUUGUUGUUUC-----CUCAACUUUGGGGCAAAGCUGCAGAAUUUAUUGCUUUUGAAAUGCGGUUGCGCAUAAAUGUGCAGCAAGCAAA----ACAUUAACAAU
-.-------------(((((((.((((-----((((....))))).)))((((((..(((((((((..(((.....)))..))).)))))).)))))).))))))----).......... ( -26.40)
>DroYak_CAF1 49226 97 + 1
-U-------------UUUUGUUGUUUC-----CUCAACUUUGGAGCAAAGCUGCAGAAUUUAUUGCUUUUGAAAUGCGGUUGCGCAUAAAUGUGCAGCAAGCAAA----ACAUUAACAAU
-.-------------((((((((((.(-----(........)))))...((((((..(((((((((..(((.....)))..))).)))))).)))))).))))))----).......... ( -24.90)
>DroAna_CAF1 49110 110 + 1
-UUUGAUGUUUUUAUUUUUGUUGGCUUGUUGGGGAAACUUCAGCGCAAAGCUGCAGAAUUUAUUGCUUUUGAAAUGCGGUUGCGCAUAAAUGUGCACCA-----A----ACACCAACAAU
-................(((((((....(((((....)....(((((..((((((...((((.......)))).)))))))))))...........)))-----)----...))))))). ( -30.30)
>consensus
_U_____________UUUUGUUGCUUC_____CACAACUUUGGGGCAAAGCUGCAGAAUUUAUUGCUUUUGAAAUGCGGUUGCGCAUAAAUGUGCAGCAAGCAAA____ACAUGAACAAU
.................((((((((((..............)))))...((((((..(((((((((..(((.....)))..))).)))))).))))))................))))). (-18.17 = -18.47 +   0.31)

alignment

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secondary structure

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dotplot

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Window 1

Location 8,617,941 – 8,618,038
Length 97
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.41
Mean single sequence MFE -25.67
Consensus MFE -11.90
Energy contribution -12.06
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -3.08
Structure conservation index 0.46
SVM decision value 1.75
SVM RNA-class probability 0.975423
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8617941 97 - 22407834
AUUGUUCAUGU----UUUGCUUGCUGCACAUUUAUGCGCAACCGCAUUUCGAAAGCAAUAAAUUCUGCAGCUUUGCCCCAAAGUUGUG-----GAAGCAACAAAA-------------A-
..........(----((((.(((((((......(((((....))))).......))).....(((..((((((((...))))))))..-----))))))))))))-------------.- ( -27.42)
>DroVir_CAF1 61383 90 - 1
CCUGUUUGUUUGCAGUUGUUCUGCUGCACAUUUAUGCGCAGCCACAUUUCAAAAGCAAUAAAUUUUGCAGCUUUGCGCU-----------------GCAACAAAA-------------AA
....((((((.(((((.((...((((((.((((((((.................)).))))))..))))))...)))))-----------------)))))))).-------------.. ( -26.23)
>DroSec_CAF1 46241 97 - 1
AUUGUUCAUGU----UUUGCUUGCUGCACAUUUAUGCGCAACCGCAUUUCUAAAGCAAUAAAUUCUGCAGCUUUGCCCCAAAGUUGUG-----GAAGCAACAAAA-------------A-
..........(----((((.(((((((......(((((....))))).......))).....(((..((((((((...))))))))..-----))))))))))))-------------.- ( -27.42)
>DroEre_CAF1 47871 97 - 1
AUUGUUAAUGU----UUUGCUUGCUGCACAUUUAUGCGCAACCGCAUUUCAAAAGCAAUAAAUUCUGCAGCUUUGCCCCAAAGUUGAG-----GAAACAACAAAA-------------A-
((((((..((.----..(((((((.(((......)))))))..)))...))..))))))...((((.((((((((...)))))))).)-----))).........-------------.- ( -23.20)
>DroYak_CAF1 49226 97 - 1
AUUGUUAAUGU----UUUGCUUGCUGCACAUUUAUGCGCAACCGCAUUUCAAAAGCAAUAAAUUCUGCAGCUUUGCUCCAAAGUUGAG-----GAAACAACAAAA-------------A-
((((((..((.----..(((((((.(((......)))))))..)))...))..))))))...((((.((((((((...)))))))).)-----))).........-------------.- ( -23.20)
>DroAna_CAF1 49110 110 - 1
AUUGUUGGUGU----U-----UGGUGCACAUUUAUGCGCAACCGCAUUUCAAAAGCAAUAAAUUCUGCAGCUUUGCGCUGAAGUUUCCCCAACAAGCCAACAAAAAUAAAAACAUCAAA-
.((((((((..----(-----((((((......(((((....))))).......))).......((.((((.....)))).)).....))))...))))))))................- ( -26.52)
>consensus
AUUGUUAAUGU____UUUGCUUGCUGCACAUUUAUGCGCAACCGCAUUUCAAAAGCAAUAAAUUCUGCAGCUUUGCCCCAAAGUUGAG_____GAAGCAACAAAA_____________A_
......................((((((.((((((((.................)).))))))..))))))................................................. (-11.90 = -12.06 +   0.17)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:25 2006