Locus 169

Sequence ID 4_DroMel_CAF1
Location 1,083,340 – 1,083,500
Length 160
Max. P 0.977719
window270 window271

overview

Window 0

Location 1,083,340 – 1,083,460
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.33
Mean single sequence MFE -30.30
Consensus MFE -27.18
Energy contribution -27.18
Covariance contribution -0.00
Combinations/Pair 1.07
Mean z-score -1.68
Structure conservation index 0.90
SVM decision value 1.80
SVM RNA-class probability 0.977719
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1083340 120 - 1281640
CUGUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAGAAAGGCAGCCUGCGUGAUCGGACAGAAAAAAUUACAGUUCGAAAGAAGUUUACUCUUGUAUUGUUCCCGG
((((((((.....(((((....)))))....(((..((((...(((((((.........)))))))))))..)))....))))))))(((....)))...(((....))).......... ( -35.60)
>DroSec_CAF1 15987 120 - 1
CUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCGCGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAAAUUACAGUUCGAAAGAAGUUUACUUUUGUAUUGUUCCAGG
................(((((..((((.((.(((..((((...((((((...........))))))))))..)))..((((.((.(.(((....))).).)).)))))).))))))))). ( -30.00)
>DroSim_CAF1 14464 120 - 1
CUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCGCGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAAAUUACAGUUCGAAAGAAGUUUACUUUUGUAUUGUUCCAGG
................(((((..((((.((.(((..((((...((((((...........))))))))))..)))..((((.((.(.(((....))).).)).)))))).))))))))). ( -30.00)
>DroEre_CAF1 22730 120 - 1
CUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAAAUUACAGUUCGAAAGAAUGUUACUUCUGUAUUGUUCCACG
.............(((((....)))))(((.(((..((((...((((((...........))))))))))..))).......((((((((....)))........)))))..)))..... ( -27.40)
>DroYak_CAF1 20312 120 - 1
CUUUAAUUAAAAGUAGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAAAAUGACACACUGCGUGAUCGGACAGAAAAAAUUACAGUUCGAAAGAAUGUUACUUCUGUAUUGUUCUAGG
................(((((..((((.((.(((..((((...((((((...........))))))))))..)))...........((((....)))).........)).))))))))). ( -28.50)
>consensus
CUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAAAUUACAGUUCGAAAGAAGUUUACUUUUGUAUUGUUCCAGG
................(((((..((((.((.(((..((((...((((((...........))))))))))..)))............(((....)))..........)).))))))))). (-27.18 = -27.18 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,083,380 – 1,083,500
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.50
Mean single sequence MFE -26.34
Consensus MFE -24.24
Energy contribution -24.20
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.21
Structure conservation index 0.92
SVM decision value 0.27
SVM RNA-class probability 0.660758
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 1083380 120 - 1281640
GUUCCUGAAUUGCAGUUAACGACUGAUAAGAAACUUUAAUCUGUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAGAAAGGCAGCCUGCGUGAUCGGACAGAAAAA
(((.((.((((((((((((.(.((....))...).)))).))))))))...))(((((....)))))))).(((..((((...(((((((.........)))))))))))..)))..... ( -32.30)
>DroSec_CAF1 16027 120 - 1
GUUCAUGAAUUGCAGUUAACGACUGAUAAGAAACUUUAAUCUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCGCGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAA
((((.......(((((.......((((((((........))))..))))....(((((....)))))...)))))..(((...((((((...........)))))))))))))....... ( -24.60)
>DroSim_CAF1 14504 120 - 1
GUUCAUGAAUUGCAGUUAACGACUGAUAAGAAACUUUAAUCUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCGCGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAA
((((.......(((((.......((((((((........))))..))))....(((((....)))))...)))))..(((...((((((...........)))))))))))))....... ( -24.60)
>DroEre_CAF1 22770 120 - 1
GUUCAUGAAUUGCAGUUACCGACUGAUAAGAAACUUUAAUCUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAA
((((.......(((((.......((((((((........))))..))))....(((((....)))))...)))))..(((...((((((...........)))))))))))))....... ( -25.00)
>DroYak_CAF1 20352 120 - 1
GUUCAUGAAUUGCAGUUAACGACUGAUAAGAAACUUUAAUCUUUAAUUAAAAGUAGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAAAAUGACACACUGCGUGAUCGGACAGAAAAA
(((..((..((.((((((.........((((........))))..........)))))).))..)).))).(((..((((...((((((...........))))))))))..)))..... ( -25.21)
>consensus
GUUCAUGAAUUGCAGUUAACGACUGAUAAGAAACUUUAAUCUUUAAUUAAAAGUUGCUGGAAAGCAAAACGCUGCUCGAUAAGCACGCAAAAUGACAGCCUGCGUGAUCGGACAGAAAAA
((((.......(((((..................((((((.....))))))..(((((....)))))...)))))..(((...((((((...........)))))))))))))....... (-24.24 = -24.20 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:59 2006