Locus 6767

Sequence ID 3R_DroMel_CAF1
Location 17,851,237 – 17,851,327
Length 90
Max. P 0.991995
window10986 window10987

overview

Window 6

Location 17,851,237 – 17,851,327
Length 90
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 74.70
Mean single sequence MFE -19.08
Consensus MFE -12.25
Energy contribution -12.38
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -2.27
Structure conservation index 0.64
SVM decision value 2.30
SVM RNA-class probability 0.991995
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17851237 90 + 27905053
ACGCGCUUUUCAACACUGCCAGACAUUAACCCCCUGAAGC-CGCAGGUGUUAGAAAAGCAU-CAUACAUAUAA-ACAUACA--------UAU-AAUGUUAUG
....((((((((((((((((((...........)))....-.))).))))).)))))))..-..........(-((((...--------...-.)))))... ( -18.60)
>DroSim_CAF1 6002 93 + 1
ACGCGUUUUUCAACACUGCCAGACAUUAACCCCCUAAAGC-CACAGGUGUUAGAAAAACGCAAAUACAUAUAUUUCAUAAA--------UAUGAAAAAUAUA
..(((((((((((((((....(.(.(((......))).))-....)))))).)))))))))......((((.((((((...--------.)))))).)))). ( -22.30)
>DroEre_CAF1 5703 75 + 1
ACGCGUUUUUCAACACUGCCAGACAUUAACCCCCUGAAGC-CGCAGGUGCUAGAAAAGCACGAAUA-------------------------U-GAUAUUUCG
.((.(((((((.((.(((((((...........)))....-.))))))....))))))).))....-------------------------.-......... ( -14.10)
>DroYak_CAF1 5717 101 + 1
ACGCGUUUUUCAACACUGCCAGACAUUAACCCCCUGAAGCCCGCAGGUGUUGGAAAAGCACCAAUACAUACAUUUCAUACAAUUGUAGGUAU-AAAGUUUUG
..((.(((((((((((((((((...........)))......))).)))))))))))))....((((.((((...........)))).))))-......... ( -21.30)
>consensus
ACGCGUUUUUCAACACUGCCAGACAUUAACCCCCUGAAGC_CGCAGGUGUUAGAAAAGCAC_AAUACAUAUAU_UCAUACA________UAU_AAAAUUAUG
....((((((((((((((((((...........)))..)).....)))))).)))))))........................................... (-12.25 = -12.38 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,851,237 – 17,851,327
Length 90
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 74.70
Mean single sequence MFE -23.08
Consensus MFE -18.10
Energy contribution -17.98
Covariance contribution -0.13
Combinations/Pair 1.23
Mean z-score -1.41
Structure conservation index 0.78
SVM decision value 0.63
SVM RNA-class probability 0.805997
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17851237 90 - 27905053
CAUAACAUU-AUA--------UGUAUGU-UUAUAUGUAUG-AUGCUUUUCUAACACCUGCG-GCUUCAGGGGGUUAAUGUCUGGCAGUGUUGAAAAGCGCGU
......(((-(((--------(((((..-..)))))))))-))(((((((.(((((.(((.-....((((.(.....).))))))))))))))))))).... ( -25.00)
>DroSim_CAF1 6002 93 - 1
UAUAUUUUUCAUA--------UUUAUGAAAUAUAUGUAUUUGCGUUUUUCUAACACCUGUG-GCUUUAGGGGGUUAAUGUCUGGCAGUGUUGAAAAACGCGU
(((((.((((((.--------...)))))).))))).....(((((((((.(((((.((((-((.((((....)))).)))..))))))))))))))))).. ( -26.80)
>DroEre_CAF1 5703 75 - 1
CGAAAUAUC-A-------------------------UAUUCGUGCUUUUCUAGCACCUGCG-GCUUCAGGGGGUUAAUGUCUGGCAGUGUUGAAAAACGCGU
.........-.-------------------------....((((.(((((.(((((.(((.-....((((.(.....).))))))))))))))))).)))). ( -17.90)
>DroYak_CAF1 5717 101 - 1
CAAAACUUU-AUACCUACAAUUGUAUGAAAUGUAUGUAUUGGUGCUUUUCCAACACCUGCGGGCUUCAGGGGGUUAAUGUCUGGCAGUGUUGAAAAACGCGU
....(((..-((((.((((.((.....)).)))).)))).)))((((((.((((((.(((((((..............)))).))))))))).)))).)).. ( -22.64)
>consensus
CAAAACAUU_AUA________UGUAUGA_AUAUAUGUAUU_GUGCUUUUCUAACACCUGCG_GCUUCAGGGGGUUAAUGUCUGGCAGUGUUGAAAAACGCGU
.........................................(((((((((.(((((.(((......((((.(.....).))))))))))))))))))))).. (-18.10 = -17.98 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:25 2006