Locus 1520

Sequence ID 3R_DroMel_CAF1
Location 4,335,556 – 4,335,653
Length 97
Max. P 0.808399
window2527 window2528

overview

Window 7

Location 4,335,556 – 4,335,653
Length 97
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 91.86
Mean single sequence MFE -24.93
Consensus MFE -20.43
Energy contribution -21.68
Covariance contribution 1.25
Combinations/Pair 1.08
Mean z-score -1.95
Structure conservation index 0.82
SVM decision value 0.09
SVM RNA-class probability 0.578928
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4335556 97 + 27905053
CUCUGCAAUUUUCUUUUGUAGCAACAU----AUUUUCUCGCUCUCCAGUGGAGCCGUAGAACUGCCUUUUUAGUGGCAGCUCGCUGCGCUAAAAAGAUUAC
...........((((((.((((.....----........(((((.....))))).((((..(((((........)))))....)))))))))))))).... ( -27.30)
>DroSec_CAF1 22786 97 + 1
CUCUGCAAUUUUCUUUUGUAGCAACAU----AUUUUCUCGCUCUCCAGUGGAGCCGUAGAACUGCCUUUUCAGUGGGAGCUCGCUGCGCUAAAAAGAUUAC
...........(((((((((((((...----...))...((((.(((.(((((..(((....)))..))))).)))))))..)))))....)))))).... ( -22.80)
>DroSim_CAF1 12135 97 + 1
CUCUGCAAUUUUCUUUUGUAGCAACAU----AUUUUCUCGCUUUCCAGUGGAGCCGUAGAACUGCCUUUUCAGUGGCAGCUCGCUGCGCUAAAAAGAUUAC
...........((((((.((((.....----....((.((((....))))))((.((.((.(((((........))))).)))).)))))))))))).... ( -25.30)
>DroEre_CAF1 23025 97 + 1
CUCUGCAAUUUUCUUUUGUAGCAACAU----AUUUUCUCGCUCUCCAGCGGAGCCGUACAACUGCCUUUUCAGUGGCAGCUCGCUGCGCCAAAAAGAUUAC
...........(((((((((((.....----.......((((....))))((((.((...((((......)))).)).)))))))))....)))))).... ( -24.90)
>DroYak_CAF1 14665 97 + 1
CUCUGCAAUUUUCUUUUGUAGCAACAU----AUUUUCUCGCUCUCCAGUGGAGCCGUAGAACUGCCUUUUCAGUGGCAGCUCGCUGCGCUAAAAAGAUUAC
...........((((((.((((.....----........(((((.....))))).((((..(((((........)))))....)))))))))))))).... ( -27.30)
>DroAna_CAF1 10803 99 + 1
CUCUGCAAUUUUCUUUUGUAGCAACAUACAUAUUUCCUC--CCUUCAGUGAAGCCGUAGAAUUGCCUUUUCAAUGGCAGCAACGAGCGCUAAAAAGAUUGC
....((((...((((((.((((...........(((((.--.....)).)))(((((.(...((((........)))).).))).)))))))))))))))) ( -22.00)
>consensus
CUCUGCAAUUUUCUUUUGUAGCAACAU____AUUUUCUCGCUCUCCAGUGGAGCCGUAGAACUGCCUUUUCAGUGGCAGCUCGCUGCGCUAAAAAGAUUAC
...........((((((.((((.................(((((.....))))).((((..(((((........)))))....)))))))))))))).... (-20.43 = -21.68 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 4,335,556 – 4,335,653
Length 97
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 91.86
Mean single sequence MFE -27.57
Consensus MFE -23.30
Energy contribution -24.08
Covariance contribution 0.78
Combinations/Pair 1.10
Mean z-score -1.98
Structure conservation index 0.85
SVM decision value 0.64
SVM RNA-class probability 0.808399
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4335556 97 - 27905053
GUAAUCUUUUUAGCGCAGCGAGCUGCCACUAAAAAGGCAGUUCUACGGCUCCACUGGAGAGCGAGAAAAU----AUGUUGCUACAAAAGAAAAUUGCAGAG
((((((((((....(((((((((((((........))))))))..((.((((...))))..)).......----..)))))...))))))...)))).... ( -30.50)
>DroSec_CAF1 22786 97 - 1
GUAAUCUUUUUAGCGCAGCGAGCUCCCACUGAAAAGGCAGUUCUACGGCUCCACUGGAGAGCGAGAAAAU----AUGUUGCUACAAAAGAAAAUUGCAGAG
((((((((((....((((((((((.((........)).)))))..((.((((...))))..)).......----..)))))...))))))...)))).... ( -23.90)
>DroSim_CAF1 12135 97 - 1
GUAAUCUUUUUAGCGCAGCGAGCUGCCACUGAAAAGGCAGUUCUACGGCUCCACUGGAAAGCGAGAAAAU----AUGUUGCUACAAAAGAAAAUUGCAGAG
((((((((((....(((((((((((((........)))))))).....(((..((....)).))).....----..)))))...))))))...)))).... ( -28.20)
>DroEre_CAF1 23025 97 - 1
GUAAUCUUUUUGGCGCAGCGAGCUGCCACUGAAAAGGCAGUUGUACGGCUCCGCUGGAGAGCGAGAAAAU----AUGUUGCUACAAAAGAAAAUUGCAGAG
(((((.((((((..(((((((((((((........)))))))...((.((((...))))..)).......----.))))))..))))))...))))).... ( -29.90)
>DroYak_CAF1 14665 97 - 1
GUAAUCUUUUUAGCGCAGCGAGCUGCCACUGAAAAGGCAGUUCUACGGCUCCACUGGAGAGCGAGAAAAU----AUGUUGCUACAAAAGAAAAUUGCAGAG
((((((((((....(((((((((((((........))))))))..((.((((...))))..)).......----..)))))...))))))...)))).... ( -30.50)
>DroAna_CAF1 10803 99 - 1
GCAAUCUUUUUAGCGCUCGUUGCUGCCAUUGAAAAGGCAAUUCUACGGCUUCACUGAAGG--GAGGAAAUAUGUAUGUUGCUACAAAAGAAAAUUGCAGAG
((((((((((((((((.(((...((((........)))).....)))))(((.((.....--.)))))...........)))).))))))...)))).... ( -22.40)
>consensus
GUAAUCUUUUUAGCGCAGCGAGCUGCCACUGAAAAGGCAGUUCUACGGCUCCACUGGAGAGCGAGAAAAU____AUGUUGCUACAAAAGAAAAUUGCAGAG
(((((((((((((((((..((((((((........))))))))..((.((((...))))..))............)).))))).))))))...)))).... (-23.30 = -24.08 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:43 2006