Locus 6191

Sequence ID 3L_DroMel_CAF1
Location 16,401,254 – 16,401,348
Length 94
Max. P 0.999283
window9941 window9942

overview

Window 1

Location 16,401,254 – 16,401,348
Length 94
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 82.22
Mean single sequence MFE -26.31
Consensus MFE -21.34
Energy contribution -22.59
Covariance contribution 1.25
Combinations/Pair 1.04
Mean z-score -2.67
Structure conservation index 0.81
SVM decision value 2.38
SVM RNA-class probability 0.993145
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16401254 94 + 23771897
UGAGUUUCUGAG--------UUUCUAAGUUUCCAGAGUCUCUGGUUCUCUGGAUAUCUGAAUAUCUGACUAUCUGAGUUCCAGAGUUUCUCAGUUUCGGUCU
.(((...(((((--------.((((........)))).((((((..(((.(((((((.(.....).)).))))))))..))))))...))))).)))..... ( -25.60)
>DroSec_CAF1 16229 93 + 1
UGAGUUGCUGAG--------UUUCUAAGUUUCC-GAGUCUCUGGUUCUCUGGAUAUCUGAAUAUCUGGAUAUCUGAGUUCCAGAGUUUCUCAGUUUCGGUCU
...(..((((((--------.............-....((((((..(((.((((((((........)))))))))))..))))))...))))))..)..... ( -30.15)
>DroSim_CAF1 16256 101 + 1
UGAGUUGCUGAGUUUCUGAGUUUCUAAGUUUCC-AAGUCUUUGGUUCUCUGGAUAUCUGAAUAUCUGGAUAUCUGAGUUCCACAGUUUCUCAGUUUCGGUCG
...(..((((((...(((.......(((.....-....)))(((..(((.((((((((........)))))))))))..))))))...))))))..)..... ( -27.10)
>DroEre_CAF1 18017 77 + 1
UGAGUUUCUGAG--------AUUCUGAGUUUCC-GAGUCUCUGGUUCUCUGGAUA----------------UCUGAGCUCCAGAGUUUCUCAGUUUCGGUCU
.......(((((--------(..(((((.....-(((.((((((..(((.((...----------------.)))))..))))))))))))))))))))... ( -22.40)
>consensus
UGAGUUGCUGAG________UUUCUAAGUUUCC_GAGUCUCUGGUUCUCUGGAUAUCUGAAUAUCUGGAUAUCUGAGUUCCAGAGUUUCUCAGUUUCGGUCU
.(((...(((((......................(((.((((((..(((.((((((((........)))))))))))..)))))))))))))).)))..... (-21.34 = -22.59 +   1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,401,254 – 16,401,348
Length 94
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 82.22
Mean single sequence MFE -23.23
Consensus MFE -20.30
Energy contribution -21.30
Covariance contribution 1.00
Combinations/Pair 1.05
Mean z-score -3.51
Structure conservation index 0.87
SVM decision value 3.48
SVM RNA-class probability 0.999283
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16401254 94 - 23771897
AGACCGAAACUGAGAAACUCUGGAACUCAGAUAGUCAGAUAUUCAGAUAUCCAGAGAACCAGAGACUCUGGAAACUUAGAAA--------CUCAGAAACUCA
.........(((((...(((((((..((.((((......))))..))..)))))))..((((.....))))...........--------)))))....... ( -24.70)
>DroSec_CAF1 16229 93 - 1
AGACCGAAACUGAGAAACUCUGGAACUCAGAUAUCCAGAUAUUCAGAUAUCCAGAGAACCAGAGACUC-GGAAACUUAGAAA--------CUCAGCAACUCA
.........(((((...((((((..(((.((((((..........))))))..)))..))))))....-(....).......--------)))))....... ( -25.20)
>DroSim_CAF1 16256 101 - 1
CGACCGAAACUGAGAAACUGUGGAACUCAGAUAUCCAGAUAUUCAGAUAUCCAGAGAACCAAAGACUU-GGAAACUUAGAAACUCAGAAACUCAGCAACUCA
.........(((((...((.(((..(((.((((((..........))))))..)))..))).)).((.-(....)..))...)))))............... ( -19.90)
>DroEre_CAF1 18017 77 - 1
AGACCGAAACUGAGAAACUCUGGAGCUCAGA----------------UAUCCAGAGAACCAGAGACUC-GGAAACUCAGAAU--------CUCAGAAACUCA
.........((((((..((((((..(((...----------------......)))..))))))....-(....)......)--------)))))....... ( -23.10)
>consensus
AGACCGAAACUGAGAAACUCUGGAACUCAGAUAUCCAGAUAUUCAGAUAUCCAGAGAACCAGAGACUC_GGAAACUUAGAAA________CUCAGAAACUCA
.........(((((...((((((..(((.((((((..........))))))..)))..)))))).....(....)...............)))))....... (-20.30 = -21.30 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:24 2006