Locus 6130

Sequence ID 2L_DroMel_CAF1
Location 17,129,416 – 17,129,536
Length 120
Max. P 0.998829
window9780 window9781

overview

Window 0

Location 17,129,416 – 17,129,536
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.66
Mean single sequence MFE -30.34
Consensus MFE -28.50
Energy contribution -28.70
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.94
SVM decision value 2.24
SVM RNA-class probability 0.990904
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17129416 120 + 22407834
GCAGUAUAGGGGGUGCCCCAAAACAACAACUUAAUGUCCAAAUGAAAUAAGUGAAAAUUUCACACCGAAAUUAAUAAAGACAUUAGUGCGUGUGGGCGUGGCUCAUUUGGGGCAUUUAAC
..........(((((((((((((((...(((.(((((((....)......((((.....))))...............)))))))))...)))((((...)))).))))))))))))... ( -32.70)
>DroSec_CAF1 97852 119 + 1
GCCGUAUAGG-GGAGCCCCAAAACAACAACUUAAUGUCCAAAUGAAAUAAGUGAAAAUUUCACACCGAAAUUAAUAAAGACAUUAGUGCGUGUGGGCGUGGCUCAUUUGGGGCAUUUAAC
.((.....))-...(((((((((((...(((.(((((((....)......((((.....))))...............)))))))))...)))((((...)))).))))))))....... ( -30.90)
>DroSim_CAF1 109794 119 + 1
GCAGUAUAGGGGGAGCCCCAAAACAACAACUUAAUGUCCAAAUGAAAUAAGUGAAAAUUUCACACCGAAAUUAAUAAAGACAUUAGUGCGUGUGGGCGUGGCUC-UAUGGGGCAUUUAAC
((..(((((((...((((....(((...(((.(((((((....)......((((.....))))...............)))))))))...)))))))....)))-))))..))....... ( -29.10)
>DroEre_CAF1 95277 119 + 1
GCAGUAAAGG-GGAGCCCCAAAACAACAACUUAAUGUCCAAAUGAAAUAAGUGAAAAUUUCACACCGAAAUUAAUAAAGACAUUAGUGCGUGUGGGCGUGGCUCAUUUGGGGCAUUUAAC
..........-...(((((((((((...(((.(((((((....)......((((.....))))...............)))))))))...)))((((...)))).))))))))....... ( -29.50)
>DroYak_CAF1 95986 120 + 1
GCAGUAAAGGGGGAGCCCCAAAACAACAACUUAAUGUCCAAAUGAAAUAAGUGAAAAUUUCACACCGAAAUUAAUAAAGACAUUAGUGCGUGUGGGCGUGGCUCAUUUGGGGCAUUUAAC
..............(((((((((((...(((.(((((((....)......((((.....))))...............)))))))))...)))((((...)))).))))))))....... ( -29.50)
>consensus
GCAGUAUAGGGGGAGCCCCAAAACAACAACUUAAUGUCCAAAUGAAAUAAGUGAAAAUUUCACACCGAAAUUAAUAAAGACAUUAGUGCGUGUGGGCGUGGCUCAUUUGGGGCAUUUAAC
..............(((((((((((...(((.(((((((....)......((((.....))))...............)))))))))...)))((((...)))).))))))))....... (-28.50 = -28.70 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,129,416 – 17,129,536
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.66
Mean single sequence MFE -29.11
Consensus MFE -28.55
Energy contribution -28.75
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.06
Structure conservation index 0.98
SVM decision value 3.24
SVM RNA-class probability 0.998829
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17129416 120 - 22407834
GUUAAAUGCCCCAAAUGAGCCACGCCCACACGCACUAAUGUCUUUAUUAAUUUCGGUGUGAAAUUUUCACUUAUUUCAUUUGGACAUUAAGUUGUUGUUUUGGGGCACCCCCUAUACUGC
......(((((((((..(((.((((......))..((((((((..............(((((((........)))))))..)))))))).)).)))..)))))))))............. ( -30.49)
>DroSec_CAF1 97852 119 - 1
GUUAAAUGCCCCAAAUGAGCCACGCCCACACGCACUAAUGUCUUUAUUAAUUUCGGUGUGAAAUUUUCACUUAUUUCAUUUGGACAUUAAGUUGUUGUUUUGGGGCUCC-CCUAUACGGC
.......((((((((..(((.((((......))..((((((((..............(((((((........)))))))..)))))))).)).)))..))))))))...-.......... ( -29.29)
>DroSim_CAF1 109794 119 - 1
GUUAAAUGCCCCAUA-GAGCCACGCCCACACGCACUAAUGUCUUUAUUAAUUUCGGUGUGAAAUUUUCACUUAUUUCAUUUGGACAUUAAGUUGUUGUUUUGGGGCUCCCCCUAUACUGC
.......((((((.(-.(((.((((......))..((((((((..............(((((((........)))))))..)))))))).)).))).)..)))))).............. ( -27.19)
>DroEre_CAF1 95277 119 - 1
GUUAAAUGCCCCAAAUGAGCCACGCCCACACGCACUAAUGUCUUUAUUAAUUUCGGUGUGAAAUUUUCACUUAUUUCAUUUGGACAUUAAGUUGUUGUUUUGGGGCUCC-CCUUUACUGC
.......((((((((..(((.((((......))..((((((((..............(((((((........)))))))..)))))))).)).)))..))))))))...-.......... ( -29.29)
>DroYak_CAF1 95986 120 - 1
GUUAAAUGCCCCAAAUGAGCCACGCCCACACGCACUAAUGUCUUUAUUAAUUUCGGUGUGAAAUUUUCACUUAUUUCAUUUGGACAUUAAGUUGUUGUUUUGGGGCUCCCCCUUUACUGC
.......((((((((..(((.((((......))..((((((((..............(((((((........)))))))..)))))))).)).)))..)))))))).............. ( -29.29)
>consensus
GUUAAAUGCCCCAAAUGAGCCACGCCCACACGCACUAAUGUCUUUAUUAAUUUCGGUGUGAAAUUUUCACUUAUUUCAUUUGGACAUUAAGUUGUUGUUUUGGGGCUCCCCCUAUACUGC
.......((((((((..(((.((((......))..((((((((..............(((((((........)))))))..)))))))).)).)))..)))))))).............. (-28.55 = -28.75 +   0.20)

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 12:02:58 2006