Locus 3655

Sequence ID X_DroMel_CAF1
Location 9,793,601 – 9,793,703
Length 102
Max. P 0.979115
window5982 window5983

overview

Window 2

Location 9,793,601 – 9,793,703
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 90.60
Mean single sequence MFE -20.04
Consensus MFE -18.86
Energy contribution -18.86
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 0.94
SVM decision value 0.59
SVM RNA-class probability 0.792978
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9793601 102 + 22224390
CGCCUGAAUUUCUUUUUUCAGCUUUCUGCUGCACUUUUUUUUUUUUUUUGCAAAAUUCCUCAUAAUGCGCUGCCAACAGCGGCCUGUCAGCGUAUGAAUGUG
.((..(((..........((((.....)))).............)))..)).........(((.((((((((...((((....))))))))))))..))).. ( -19.30)
>DroSec_CAF1 8333 94 + 1
CGCCUGAAUUUCUUUUUUCAGCUUUUUGCUGCAUUUUU---UUUUUUUUGCAAAAUUCCUCAUAAUGCGCUGCCAACAGCGGCCUGUCAGCGUAUGA-----
.((.((((........)))))).((((((.........---........)))))).........((((((((...((((....))))))))))))..----- ( -20.43)
>DroSim_CAF1 9476 91 + 1
CGCCUGAAUUUUUUUUUUCAGCUUUCUGCUGCAUUUUU------UUUUUGCAAAAUUCCUCAUAAUGCGCUGCCAACAGCGGCCUGUCAGCGUAUGA-----
.....(((((((.......(((.....)))(((.....------....))))))))))......((((((((...((((....))))))))))))..----- ( -20.40)
>consensus
CGCCUGAAUUUCUUUUUUCAGCUUUCUGCUGCAUUUUU___UUUUUUUUGCAAAAUUCCUCAUAAUGCGCUGCCAACAGCGGCCUGUCAGCGUAUGA_____
.((.((((........)))))).......((((...............))))............((((((((...((((....))))))))))))....... (-18.86 = -18.86 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 9,793,601 – 9,793,703
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 90.60
Mean single sequence MFE -21.90
Consensus MFE -21.90
Energy contribution -21.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.06
Structure conservation index 1.00
SVM decision value 1.83
SVM RNA-class probability 0.979115
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9793601 102 - 22224390
CACAUUCAUACGCUGACAGGCCGCUGUUGGCAGCGCAUUAUGAGGAAUUUUGCAAAAAAAAAAAAAAAGUGCAGCAGAAAGCUGAAAAAAGAAAUUCAGGCG
...........((..((((....))))..)).(((((..((.....))..)))..................((((.....))))...............)). ( -21.90)
>DroSec_CAF1 8333 94 - 1
-----UCAUACGCUGACAGGCCGCUGUUGGCAGCGCAUUAUGAGGAAUUUUGCAAAAAAAA---AAAAAUGCAGCAAAAAGCUGAAAAAAGAAAUUCAGGCG
-----......((..((((....))))..)).(((((..((.....))..)))........---.......((((.....))))...............)). ( -21.90)
>DroSim_CAF1 9476 91 - 1
-----UCAUACGCUGACAGGCCGCUGUUGGCAGCGCAUUAUGAGGAAUUUUGCAAAAA------AAAAAUGCAGCAGAAAGCUGAAAAAAAAAAUUCAGGCG
-----......((..((((....))))..)).(((((..((.....))..))).....------.......((((.....))))...............)). ( -21.90)
>consensus
_____UCAUACGCUGACAGGCCGCUGUUGGCAGCGCAUUAUGAGGAAUUUUGCAAAAAAAA___AAAAAUGCAGCAGAAAGCUGAAAAAAGAAAUUCAGGCG
...........((..((((....))))..)).(((((..((.....))..)))..................((((.....))))...............)). (-21.90 = -21.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:48 2006