Locus 7763

Sequence ID 2L_DroMel_CAF1
Location 21,898,656 – 21,898,826
Length 170
Max. P 0.665910
window12449 window12450

overview

Window 9

Location 21,898,656 – 21,898,769
Length 113
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 81.55
Mean single sequence MFE -24.46
Consensus MFE -16.95
Energy contribution -17.20
Covariance contribution 0.25
Combinations/Pair 1.20
Mean z-score -1.55
Structure conservation index 0.69
SVM decision value -0.01
SVM RNA-class probability 0.530799
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21898656 113 - 22407834
ACUGUACUAGUUCAUGGUUUCCAAAUAAGAGAAACCAGCACGGAAUUCCUAAACCAAA-------ACCUUUUCAGACCCUUGGCCCCGUAAGGCAUCACUUGCUACUCUUAGUAUCGGGC
.(((.....((...((((((((......).)))))))..))((....)).........-------.......))).......((((.(((((......)))))(((.....)))..)))) ( -23.40)
>DroSec_CAF1 188680 113 - 1
ACUGUACUAGUUCAUGGUUUCUACAUAAGAGAAACCAGAACGAAAUUCAUAAACCAAA-------CCCUUUCCAGACCCUUGUCCCCGUAAGGCAUCACUUGCUACUCUUAGUAUCUGGU
.........((((.((((((((.......)))))))))))).................-------......(((((..((.......(((((......))))).......))..))))). ( -27.04)
>DroSim_CAF1 132410 113 - 1
ACUGUACUAGUUCAUGGUUUCUACAUAAGAGAAACCAGAACGAAAUUCCUAAACCAAA-------CCCUUUCCAGACCCUUGUCCCCGUAAGGCAUCACUUGCUACUCUUAGUAUCGGGU
.((((((((((((.((((((((.......))))))))))))((...............-------.........(((....)))...(((((......)))))...)).))))).))).. ( -26.30)
>DroEre_CAF1 152877 118 - 1
ACUGAACUAGAUCACUGUUUCUAAAUUAGAGAAACGAGCACAGAAUUCCUAAGCCAAAAGCGAACACCUUGCCAGACCCCAAGCCAUGUUGGGCAUCACUUUCUACUCAUGGUAGA--AA
.(((...........(((((((.......))))))).(((..(..(((((........)).)))..)..))))))..(((((......))))).......((((((.....)))))--). ( -21.10)
>consensus
ACUGUACUAGUUCAUGGUUUCUAAAUAAGAGAAACCAGAACGAAAUUCCUAAACCAAA_______ACCUUUCCAGACCCUUGGCCCCGUAAGGCAUCACUUGCUACUCUUAGUAUCGGGU
...((((((((((.((((((((.......)))))))))))).................................((.(((((......)))))..))............))))))..... (-16.95 = -17.20 +   0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,898,729 – 21,898,826
Length 97
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 77.97
Mean single sequence MFE -21.77
Consensus MFE -13.86
Energy contribution -14.87
Covariance contribution 1.01
Combinations/Pair 1.10
Mean z-score -1.68
Structure conservation index 0.64
SVM decision value 0.28
SVM RNA-class probability 0.665910
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21898729 97 - 22407834
--UUCU-----------C-GAAAUCGGUAUGAA--------UAGUUAAGAUUGAAUAGCUGCAAUUUAAUUUAAUGCAAACUGUACUAGUUCAUGGUUUCCAAAUAAGAGAAACCAGCA
--....-----------.-(((..((((.((..--------..((((.((((((((.......)))))))))))).)).))))......))).((((((((......).)))))))... ( -17.00)
>DroSec_CAF1 188753 118 - 1
AUCUCCCUUUUCGCUACGAGAAAUCGGUAUAAAA-AAAAUGUAGUUAAGAUUGAAUUGCUGCAAUUUCACUUAACAGCAACUGUACUAGUUCAUGGUUUCUACAUAAGAGAAACCAGAA
............(((((((....)))(((((...-....(((.((((((...((((((...))))))..)))))).)))..)))))))))((.((((((((.......)))))))))). ( -24.50)
>DroSim_CAF1 132483 108 - 1
AUAUCU-----------GGUAAAUCGGUAUAAAAAAAAAUGUAGUUAAGAUUGAAUUGCUGCAAUUUCACUUAACAGCAACUGUACUAGUUCAUGGUUUCUACAUAAGAGAAACCAGAA
....((-----------((((...((((...........(((.((((((...((((((...))))))..)))))).)))))))))))))(((.((((((((.......))))))))))) ( -23.80)
>consensus
AUAUCU___________G_GAAAUCGGUAUAAAA_AAAAUGUAGUUAAGAUUGAAUUGCUGCAAUUUCACUUAACAGCAACUGUACUAGUUCAUGGUUUCUACAUAAGAGAAACCAGAA
.....................(((..(((((........(((.((((((...((((((...))))))..)))))).)))..)))))..)))..((((((((.......))))))))... (-13.86 = -14.87 +   1.01)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:21 2006