Locus 6059

Sequence ID 2L_DroMel_CAF1
Location 17,047,904 – 17,048,095
Length 191
Max. P 0.863439
window9623 window9624

overview

Window 3

Location 17,047,904 – 17,048,016
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.49
Mean single sequence MFE -32.56
Consensus MFE -27.98
Energy contribution -28.22
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 0.86
SVM decision value 0.84
SVM RNA-class probability 0.863439
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17047904 112 + 22407834
UUUUGCCAUUUUGCACUCUGC-----U---CUGUUGUUGGCUUCCGCUUUUAGUUGCAAUUAAACAAGCCAGUGCACCGCACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUC
...((((.(((((((.(((((-----(---(((((..((((((.....((((((....)))))).))))))((((...)))).))))))...)))))..))))))))).))......... ( -33.10)
>DroSec_CAF1 12012 112 + 1
UUUUGCCAUUUUGCACUCUGC-----U---CUGUUGCUGGCUUCCGCUUUUAGUUGCAAUUAAACAAGCCAGUGCACCGCACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUC
...((((.(((((((.(((((-----(---(((((((((((((.....((((((....)))))).))))))))((...))...))))))...)))))..))))))))).))......... ( -33.10)
>DroSim_CAF1 5659 112 + 1
UUUUGCCAUUUUGCACUCUGC-----U---CUGUUGUUGGCUUCCGCUUUUAGUUGCAAUUAAACAAGCCAGUGCACCGCACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUC
...((((.(((((((.(((((-----(---(((((..((((((.....((((((....)))))).))))))((((...)))).))))))...)))))..))))))))).))......... ( -33.10)
>DroEre_CAF1 11732 112 + 1
UUUUGCCAUUUUGCAGCGUGC-----U---CUGUUGUUGGCUUCCGCUUUUAGUUGCAAUUAAACAAGCCAGUGCACCGCGCAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUC
...((((.(((((((.(.(((-----(---(((((..((((((.....((((((....)))))).))))))((((...)))).))))))...))))...))))))))).))......... ( -29.10)
>DroYak_CAF1 9683 120 + 1
UUUUGCCAUUUUGCACUCUGCAUUGCUCUGCUGUUGUUGGCUUCCGCUUUUAGUUGCAAUUAAACAAGCCAGUGCACCGCACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUC
....((.....((..(((((((((..((((((.((((((((((.....((((((....)))))).))))).((((...)))).)))))...))))))))))))).))..))..))..... ( -34.40)
>consensus
UUUUGCCAUUUUGCACUCUGC_____U___CUGUUGUUGGCUUCCGCUUUUAGUUGCAAUUAAACAAGCCAGUGCACCGCACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUC
...((((.(((((((.(((((.........(((((..((((((.....((((((....)))))).))))))((((...)))).)))))....)))))..))))))))).))......... (-27.98 = -28.22 +   0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 17,047,976 – 17,048,095
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.35
Mean single sequence MFE -32.82
Consensus MFE -26.98
Energy contribution -26.82
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.33
Structure conservation index 0.82
SVM decision value -0.00
SVM RNA-class probability 0.533316
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17047976 119 + 22407834
ACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUCAGUGCAAUGUCCAAUUUGCAUGCAUCGCUCCCU-GGUUCCUUCACUUCGCCAAAGCCAUACGGGUUGUAUCCCUCUGAAU
.....((((..(((.((.(((((((.((((((.((........)).))))))..)))))))...))......(-(((...........))))..)))....(((......)))))))... ( -34.40)
>DroSec_CAF1 12084 119 + 1
ACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUCAGUGCAAUGUCCAAUUUGCAUGCAUCGCUCCCU-GGUUCCUUCACUUCGCCAUAGCCAUACGGGUUGUAUCCCUCUGAAU
.....((((..(((.((.(((((((.((((((.((........)).))))))..)))))))...))......(-(((...........))))..)))....(((......)))))))... ( -34.20)
>DroSim_CAF1 5731 119 + 1
ACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUCAGUGCAAUGUCCAAUUUGCAUGCAUCGCUCCCU-GGUUCCUUCACUUCGCCAUAGCCAUACGGGUUGAAUCCCUGUGAAU
.....(((...(((.((.(((((((.((((((.((........)).))))))..)))))))...)))))..))-).....(((((...((....)).....(((......))).))))). ( -32.20)
>DroEre_CAF1 11804 113 + 1
GCAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUCAGUGCAAUGUCCAAUUUGCAUGCAUCGCUCCCU-GGUUCCUUCACUUCGCC------ACACGGGUUGUAUCCCUGUGAAU
.....(((...(((.((.(((((((.((((((.((........)).))))))..)))))))...)))))..))-)...............(------(((.(((......)))))))... ( -32.50)
>DroYak_CAF1 9763 114 + 1
ACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUCAGUGCAAUGUCCAAUUUGCAUGCAUCGCUCCCCGGGUUCCUUCACUUCGCC------AAACGGGUUCUAUUCCUGUGCAU
((((..((((.(((.((.(((((((.((((((.((........)).))))))..)))))))...))))).(((((((...........)))------...))))))))....)))).... ( -30.80)
>consensus
ACAGACAGAAAGGCAGAAAUGCAGAAGGACAUCGCUCAUCAGUGCAAUGUCCAAUUUGCAUGCAUCGCUCCCU_GGUUCCUUCACUUCGCCA_AGCCAUACGGGUUGUAUCCCUGUGAAU
...........(((.((.(((((((.((((((.((........)).))))))..)))))))...))(((.....)))...........)))..........(((......)))....... (-26.98 = -26.82 +  -0.16)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:02 2006