Locus 7048

Sequence ID 3R_DroMel_CAF1
Location 18,621,133 – 18,621,228
Length 95
Max. P 0.995152
window11414 window11415

overview

Window 4

Location 18,621,133 – 18,621,228
Length 95
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 81.73
Mean single sequence MFE -25.00
Consensus MFE -16.12
Energy contribution -17.36
Covariance contribution 1.24
Combinations/Pair 1.05
Mean z-score -3.25
Structure conservation index 0.64
SVM decision value 2.55
SVM RNA-class probability 0.995152
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18621133 95 + 27905053
AACGGCGAAUAUACAUGUGCACAU-UGUAUAUGUAUAUGUAAGUAAGUGUUAUUCUCAAGAGCAAUGUCGCUCUUGUCAACGCUGUUAUUGUCGUU
((((((((((((((((((((....-.)))))))))))).......((((((.....(((((((......)))))))..))))))....)))))))) ( -35.50)
>DroSec_CAF1 50420 96 + 1
AACUGCGAAUAUACACAUGCACAUAUAUGUAUGUAUAUGUAACUAAGUGUAAUUCUCAAGAGCAAUGUCGCUCUUGUCAACGCAGUUAUUGUCGUU
((((((((((.(((((.((.((((((((....))))))))...)).))))))))).(((((((......))))))).....))))))......... ( -30.30)
>DroSim_CAF1 47231 92 + 1
AACUGCGAAUAUACACAUGCACAUAUAU----GUAUAUGUAACUAAGUGUAAUUCUCAAGAGCAAUGUCGCUCUUGUCAACGCAGUUAUUGUCGUU
((((((((((.(((((.((.((((((..----..))))))...)).))))))))).(((((((......))))))).....))))))......... ( -27.40)
>DroEre_CAF1 47407 79 + 1
AACUGCGA-UACACAUAUGCACAUAUA----------------UAAGUGUAAUUCUCAAGAGCAAUGUCGCUGUUGUCAACGCUGUUAUUGUCUCU
(((.(((.-(((((.((((......))----------------)).))))).....(((.(((......))).)))....))).)))......... ( -16.80)
>DroYak_CAF1 48357 78 + 1
AACUGCGAAUAUACAAAUGC--GUAUA----------------UAAGUGUAAUUCUCAAGAGCAAUGUCGCUGUUGUCAACGCUGUUAUUGUCUCU
(((.(((.((((((......--)))))----------------)............(((.(((......))).)))....))).)))......... ( -15.00)
>consensus
AACUGCGAAUAUACACAUGCACAUAUAU____GUAUAUGUAA_UAAGUGUAAUUCUCAAGAGCAAUGUCGCUCUUGUCAACGCUGUUAUUGUCGUU
(((((((..........(((((........................))))).....(((((((......)))))))....)))))))......... (-16.12 = -17.36 +   1.24)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,621,133 – 18,621,228
Length 95
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 81.73
Mean single sequence MFE -21.90
Consensus MFE -12.82
Energy contribution -13.90
Covariance contribution 1.08
Combinations/Pair 1.05
Mean z-score -2.55
Structure conservation index 0.59
SVM decision value 1.25
SVM RNA-class probability 0.935543
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18621133 95 - 27905053
AACGACAAUAACAGCGUUGACAAGAGCGACAUUGCUCUUGAGAAUAACACUUACUUACAUAUACAUAUACA-AUGUGCACAUGUAUAUUCGCCGUU
.........(((.(((....((((((((....))))))))........................(((((((-.((....))))))))).))).))) ( -19.70)
>DroSec_CAF1 50420 96 - 1
AACGACAAUAACUGCGUUGACAAGAGCGACAUUGCUCUUGAGAAUUACACUUAGUUACAUAUACAUACAUAUAUGUGCAUGUGUAUAUUCGCAGUU
.........((((((.....((((((((....)))))))).(((((((((...((.(((((((......)))))))))..))))).)))))))))) ( -31.60)
>DroSim_CAF1 47231 92 - 1
AACGACAAUAACUGCGUUGACAAGAGCGACAUUGCUCUUGAGAAUUACACUUAGUUACAUAUAC----AUAUAUGUGCAUGUGUAUAUUCGCAGUU
.........((((((.....((((((((....)))))))).(((((((((...((.((((((..----..))))))))..))))).)))))))))) ( -30.50)
>DroEre_CAF1 47407 79 - 1
AGAGACAAUAACAGCGUUGACAACAGCGACAUUGCUCUUGAGAAUUACACUUA----------------UAUAUGUGCAUAUGUGUA-UCGCAGUU
((((.((((.....(((((....)))))..))))))))((.((..(((((.((----------------(........))).)))))-)).))... ( -14.80)
>DroYak_CAF1 48357 78 - 1
AGAGACAAUAACAGCGUUGACAACAGCGACAUUGCUCUUGAGAAUUACACUUA----------------UAUAC--GCAUUUGUAUAUUCGCAGUU
((((.((((.....(((((....)))))..))))))))..........(((.(----------------(((((--(....)))))))....))). ( -12.90)
>consensus
AACGACAAUAACAGCGUUGACAAGAGCGACAUUGCUCUUGAGAAUUACACUUA_UUACAUAUAC____AUAUAUGUGCAUAUGUAUAUUCGCAGUU
.........(((.(((....((((((((....))))))))................................((((((....)))))).))).))) (-12.82 = -13.90 +   1.08)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:17 2006