Locus 3994

Sequence ID 3L_DroMel_CAF1
Location 11,632,403 – 11,632,497
Length 94
Max. P 0.955179
window6225 window6226

overview

Window 5

Location 11,632,403 – 11,632,497
Length 94
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 88.87
Mean single sequence MFE -26.60
Consensus MFE -21.21
Energy contribution -21.28
Covariance contribution 0.06
Combinations/Pair 1.14
Mean z-score -2.21
Structure conservation index 0.80
SVM decision value 1.13
SVM RNA-class probability 0.919394
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11632403 94 + 23771897
GCUUCAAUGGGGGGAAAUUGCAUUUGCUCAAAGUUGCGUAUGAGUGAUAUGAAUAUUACGCAUACGCACUGUAUGAUUGCACACUUAUA-AAAAU
((.((((((((((.((((...)))).))).....((((((((.((((((....)))))).)))))))))))).)))..)).........-..... ( -24.60)
>DroSim_CAF1 7424 94 + 1
GGUUCAAUGGG-GGAAAUUGCAUUUGCUCAAAGUUGCGUAUGAGUGAUAUGAAUAUUGCGCAUACGCACUGUAUGAUUGCACACUUAUGGAAAAG
..(((.(((((-......((((....(....(((.(((((((.(..(((....)))..).))))))))))....)..))))..))))).)))... ( -24.20)
>DroEre_CAF1 5504 93 + 1
GGUUCAAUGGG-GGAAAUUGCAUUUGCUCAAAGUUGCGUAUGAGUGAUGUGAAUAUUACGCAUACGCACUGUGUGAUUGCACGCUUAUGGCCAA-
(((...(((((-.(....((((.(..(....(((.(((((((.((((((....)))))).))))))))))..)..).))))).))))).)))..- ( -31.70)
>DroYak_CAF1 7676 93 + 1
GGUUCAAUGGG-GGAAAUUGCAUUUGCUCAAAGUUGCGUAUGAGUGAUUCGAACAUUACGCAUACGCACUGUAUGAUUGCAUGCUCUUAAUUAU-
.......((((-((....((((....(....(((.(((((((.(((((......))))).))))))))))....)..))))..)))))).....- ( -25.90)
>consensus
GGUUCAAUGGG_GGAAAUUGCAUUUGCUCAAAGUUGCGUAUGAGUGAUAUGAAUAUUACGCAUACGCACUGUAUGAUUGCACACUUAUAGAAAA_
.......((((.(((.......))).)))).(((.(((((((.((((((....)))))).))))))))))(((((....)))))........... (-21.21 = -21.28 +   0.06)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 11,632,403 – 11,632,497
Length 94
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 88.87
Mean single sequence MFE -18.68
Consensus MFE -18.34
Energy contribution -18.15
Covariance contribution -0.19
Combinations/Pair 1.11
Mean z-score -1.78
Structure conservation index 0.98
SVM decision value 1.45
SVM RNA-class probability 0.955179
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11632403 94 - 23771897
AUUUU-UAUAAGUGUGCAAUCAUACAGUGCGUAUGCGUAAUAUUCAUAUCACUCAUACGCAACUUUGAGCAAAUGCAAUUUCCCCCCAUUGAAGC
.....-.....((((....(((.....((((((((.((.(((....))).)).))))))))....)))....))))................... ( -18.20)
>DroSim_CAF1 7424 94 - 1
CUUUUCCAUAAGUGUGCAAUCAUACAGUGCGUAUGCGCAAUAUUCAUAUCACUCAUACGCAACUUUGAGCAAAUGCAAUUUCC-CCCAUUGAACC
...........((((....(((.....((((((((.(..(((....)))..).))))))))....)))....)))).......-........... ( -16.30)
>DroEre_CAF1 5504 93 - 1
-UUGGCCAUAAGCGUGCAAUCACACAGUGCGUAUGCGUAAUAUUCACAUCACUCAUACGCAACUUUGAGCAAAUGCAAUUUCC-CCCAUUGAACC
-..........((((....(((.....((((((((.((.((......)).)).))))))))....)))....)))).......-........... ( -19.00)
>DroYak_CAF1 7676 93 - 1
-AUAAUUAAGAGCAUGCAAUCAUACAGUGCGUAUGCGUAAUGUUCGAAUCACUCAUACGCAACUUUGAGCAAAUGCAAUUUCC-CCCAUUGAACC
-..........((((....(((.....((((((((.((.((......)).)).))))))))....)))....)))).......-........... ( -21.20)
>consensus
_UUUUCCAUAAGCGUGCAAUCAUACAGUGCGUAUGCGUAAUAUUCAUAUCACUCAUACGCAACUUUGAGCAAAUGCAAUUUCC_CCCAUUGAACC
...........((((....(((.....((((((((.((.((......)).)).))))))))....)))....))))................... (-18.34 = -18.15 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:59 2006