Locus 3584

Sequence ID 3L_DroMel_CAF1
Location 10,543,317 – 10,543,409
Length 92
Max. P 0.832831
window5588 window5589

overview

Window 8

Location 10,543,317 – 10,543,409
Length 92
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 88.69
Mean single sequence MFE -27.05
Consensus MFE -22.49
Energy contribution -21.83
Covariance contribution -0.66
Combinations/Pair 1.24
Mean z-score -1.90
Structure conservation index 0.83
SVM decision value 0.28
SVM RNA-class probability 0.664010
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10543317 92 + 23771897
UGUUGGUGUGAGCGCUUUGCUUUUACAUUUUUAAUUGCAGCGAGCUGCA-------CAGAGAAAAAUGCCAACAGCAAACAAUACUCACGCACUUUGGC
.....(((((((...((((((.((.(((((((...(((((....)))))-------.....)))))))..)).)))))).....)))))))........ ( -26.20)
>DroSec_CAF1 422756 92 + 1
UGUUGGUGUGAGCGCAUUGCUUUUACAUUUUUAAUUGCAGCGAGUUGCA-------CAGAGAAAAAUGCCAGCAGCAAGCAACACUCACGCACUUUGGU
.....(((((((.((.(((((.((.(((((((...(((((....)))))-------.....)))))))..)).)))))))....)))))))........ ( -25.00)
>DroSim_CAF1 431237 92 + 1
UGUUGGUGUGAGCGCAUUGCUUUUACAUUUUUAAUUGCAGCGAGCUGCA-------CAGAGAAAAAUGCCAGCAGCAAGCAACACUCACGCACUUUGGC
.....(((((((.((.(((((.((.(((((((...(((((....)))))-------.....)))))))..)).)))))))....)))))))........ ( -27.40)
>DroEre_CAF1 431632 92 + 1
UGUUGGUGUGAGCGCUUUGCUUUUACAUUUUUAAUUGCAGCAAGCUGCA-------CAGAGAAAAAUGCCUUCAGCAAGCAACACUCACGCACUUUGGC
.....(((((((.((((.(((....(((((((...(((((....)))))-------.....))))))).....)))))))....)))))))........ ( -27.40)
>DroYak_CAF1 431938 92 + 1
UGUUGGUGUGAGCGCUUUGCUUUUACAUUUUUAAUUGCAGCGAGCUGCA-------CAGAGAAAAAUGCCAUCAGCAAGCAACACUCACGCACUUUGGC
.....(((((((.((((.(((....(((((((...(((((....)))))-------.....))))))).....)))))))....)))))))........ ( -27.40)
>DroAna_CAF1 416648 96 + 1
UCUGGGUGUGGGCGCUUUGCUUUUACAUUUUUAAUUGCAGAAAGCAGUAGUAGUAGUAGAGAAAAGUGCCAGCAGCAGCCAACACUCACGCACAUC---
..(((((((.((((((((..(((((((((....(((((.....)))))...))).)))))).)))))))).((....))..)))))))........--- ( -28.90)
>consensus
UGUUGGUGUGAGCGCUUUGCUUUUACAUUUUUAAUUGCAGCGAGCUGCA_______CAGAGAAAAAUGCCAGCAGCAAGCAACACUCACGCACUUUGGC
.....(((((((.(..(((((....(((((((...(((((....)))))............))))))).....)))))....).)))))))........ (-22.49 = -21.83 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 10,543,317 – 10,543,409
Length 92
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 88.69
Mean single sequence MFE -30.70
Consensus MFE -23.53
Energy contribution -24.86
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -3.31
Structure conservation index 0.77
SVM decision value 0.72
SVM RNA-class probability 0.832831
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10543317 92 - 23771897
GCCAAAGUGCGUGAGUAUUGUUUGCUGUUGGCAUUUUUCUCUG-------UGCAGCUCGCUGCAAUUAAAAAUGUAAAAGCAAAGCGCUCACACCAACA
((......))((((((....((((((....((((((((.....-------(((((....)))))...))))))))...))))))..))))))....... ( -29.10)
>DroSec_CAF1 422756 92 - 1
ACCAAAGUGCGUGAGUGUUGCUUGCUGCUGGCAUUUUUCUCUG-------UGCAACUCGCUGCAAUUAAAAAUGUAAAAGCAAUGCGCUCACACCAACA
..........((((((((...(((((....((((((((.....-------((((......))))...))))))))...))))).))))))))....... ( -28.80)
>DroSim_CAF1 431237 92 - 1
GCCAAAGUGCGUGAGUGUUGCUUGCUGCUGGCAUUUUUCUCUG-------UGCAGCUCGCUGCAAUUAAAAAUGUAAAAGCAAUGCGCUCACACCAACA
((......))((((((((...(((((....((((((((.....-------(((((....)))))...))))))))...))))).))))))))....... ( -33.10)
>DroEre_CAF1 431632 92 - 1
GCCAAAGUGCGUGAGUGUUGCUUGCUGAAGGCAUUUUUCUCUG-------UGCAGCUUGCUGCAAUUAAAAAUGUAAAAGCAAAGCGCUCACACCAACA
((......))(((((((((..(((((....((((((((.....-------(((((....)))))...))))))))...))))))))))))))....... ( -33.30)
>DroYak_CAF1 431938 92 - 1
GCCAAAGUGCGUGAGUGUUGCUUGCUGAUGGCAUUUUUCUCUG-------UGCAGCUCGCUGCAAUUAAAAAUGUAAAAGCAAAGCGCUCACACCAACA
((......))(((((((((..(((((....((((((((.....-------(((((....)))))...))))))))...))))))))))))))....... ( -33.30)
>DroAna_CAF1 416648 96 - 1
---GAUGUGCGUGAGUGUUGGCUGCUGCUGGCACUUUUCUCUACUACUACUACUGCUUUCUGCAAUUAAAAAUGUAAAAGCAAAGCGCCCACACCCAGA
---..((.((((((((((..((....))..)))))).................((((((.((((........))))))))))..)))).))........ ( -26.60)
>consensus
GCCAAAGUGCGUGAGUGUUGCUUGCUGCUGGCAUUUUUCUCUG_______UGCAGCUCGCUGCAAUUAAAAAUGUAAAAGCAAAGCGCUCACACCAACA
..........(((((((((...((((....((((((((............(((((....)))))...))))))))...)))).)))))))))....... (-23.53 = -24.86 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:34 2006