Locus 951

Sequence ID 3R_DroMel_CAF1
Location 3,131,360 – 3,131,480
Length 120
Max. P 0.946273
window1518 window1519

overview

Window 8

Location 3,131,360 – 3,131,480
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.92
Mean single sequence MFE -25.14
Consensus MFE -11.23
Energy contribution -11.67
Covariance contribution 0.44
Combinations/Pair 1.16
Mean z-score -1.91
Structure conservation index 0.45
SVM decision value 0.28
SVM RNA-class probability 0.667745
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3131360 120 + 27905053
UCCAUUGAAUAAUAUUCAUCUUGUUUGAUCCAAGUAGAUCAAAGAGUAAAUUAAAAGUUACUUAUAGAUCGAUGUGGAAAAGUAGGAGAUCAAAUCUUAUUAAGAACUUUUUUAGUUCUA
....(..(((((........)))))..)((((....((((...((((((........))))))...))))....))))..(((((((.......))))))).((((((.....)))))). ( -25.00)
>DroSec_CAF1 6802 120 + 1
ACCAUUGAAUAAUAUUCCCCUUGUUUGAUCCAAGUAGAUCAAAGAGUUAAUUGAAAGAUACUUAUAGAUCGAAGUUGAAAAGUGGGGGAUCGAAUCUUAUUAAGAACUAUUUUAGUUCUA
.......(((((.((((((((..(((....(((.(.((((...((((..(((....)))))))...))))..).)))..)))..))))...)))).))))).(((((((...))))))). ( -25.90)
>DroSim_CAF1 7365 120 + 1
ACCAUUGAAUAAUAUUCCCCUUGUUUGAUCCAAGUAGAUCAAAGAGUAAAUUGAAAGAUACUUAUAGAUCGAAGUUGAAAAGUGGGGGAUCGAAUCUUAUUAAGAACUAUUUUAGUUCUA
.......(((((.((((((((..(((....(((.(.((((...(((((..((....)))))))...))))..).)))..)))..))))...)))).))))).(((((((...))))))). ( -26.10)
>DroEre_CAF1 7059 116 + 1
ACUGUUGAAUAAUAUUUCCCUUGUUUGAUCUAAGCAGAUCGAUGGG-AAACUAAAAGAUACUUAUAGAUCGAAGCUAAGAAGUGAGAGCUCGAAUC---UUAAGAUCUUUUUUAGUUGUA
........(((((.((((((....(((((((....))))))).)))-)))..(((((((.((((.(((((((.(((..........)))))).)))---))))))))))))...))))). ( -30.00)
>DroYak_CAF1 7143 91 + 1
-------------GUUUCAUCUGUUUGAUCUGAGUAGAUCAAUGGGGAAAUUAAAA----------GAUCGAA------AAGUGAGAGAUCGAAUCGUAUUAAGAACUAUUUUAGUUCUA
-------------(((((.((((((.(((((....)))))))))))))))).....----------((((...------........))))...........(((((((...))))))). ( -18.70)
>consensus
ACCAUUGAAUAAUAUUCCCCUUGUUUGAUCCAAGUAGAUCAAAGAGUAAAUUAAAAGAUACUUAUAGAUCGAAGUUGAAAAGUGGGAGAUCGAAUCUUAUUAAGAACUAUUUUAGUUCUA
....................((.(((((((......))))))).))....................((((.................))))...........((((((.....)))))). (-11.23 = -11.67 +   0.44)

alignment

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secondary structure

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dotplot

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Window 9

Location 3,131,360 – 3,131,480
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -20.53
Consensus MFE -9.77
Energy contribution -10.73
Covariance contribution 0.96
Combinations/Pair 1.17
Mean z-score -2.26
Structure conservation index 0.48
SVM decision value 1.36
SVM RNA-class probability 0.946273
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3131360 120 - 27905053
UAGAACUAAAAAAGUUCUUAAUAAGAUUUGAUCUCCUACUUUUCCACAUCGAUCUAUAAGUAACUUUUAAUUUACUCUUUGAUCUACUUGGAUCAAACAAGAUGAAUAUUAUUCAAUGGA
.((((((.....)))))).(((((...((.((((........((((....((((.(..(((((........)))))..).))))....)))).......)))).))..)))))....... ( -18.76)
>DroSec_CAF1 6802 120 - 1
UAGAACUAAAAUAGUUCUUAAUAAGAUUCGAUCCCCCACUUUUCAACUUCGAUCUAUAAGUAUCUUUCAAUUAACUCUUUGAUCUACUUGGAUCAAACAAGGGGAAUAUUAUUCAAUGGU
.(((((((...))))))).............(((((.((((.((......)).....))))................((((((((....))))))))...)))))............... ( -21.00)
>DroSim_CAF1 7365 120 - 1
UAGAACUAAAAUAGUUCUUAAUAAGAUUCGAUCCCCCACUUUUCAACUUCGAUCUAUAAGUAUCUUUCAAUUUACUCUUUGAUCUACUUGGAUCAAACAAGGGGAAUAUUAUUCAAUGGU
.(((((((...))))))).............(((((.((((.((......)).....))))................((((((((....))))))))...)))))............... ( -21.00)
>DroEre_CAF1 7059 116 - 1
UACAACUAAAAAAGAUCUUAA---GAUUCGAGCUCUCACUUCUUAGCUUCGAUCUAUAAGUAUCUUUUAGUUU-CCCAUCGAUCUGCUUAGAUCAAACAAGGGAAAUAUUAUUCAACAGU
.........((((((((((((---((((.(((((..........))))).))))).)))).))))))).((((-(((...(((((....)))))......)))))))............. ( -27.80)
>DroYak_CAF1 7143 91 - 1
UAGAACUAAAAUAGUUCUUAAUACGAUUCGAUCUCUCACUU------UUCGAUC----------UUUUAAUUUCCCCAUUGAUCUACUCAGAUCAAACAGAUGAAAC-------------
.(((((((...)))))))........(((((((........------...))))----------..............(((((((....)))))))......)))..------------- ( -14.10)
>consensus
UAGAACUAAAAUAGUUCUUAAUAAGAUUCGAUCUCCCACUUUUCAACUUCGAUCUAUAAGUAUCUUUUAAUUUACUCUUUGAUCUACUUGGAUCAAACAAGGGGAAUAUUAUUCAAUGGU
.((((((.....))))))......(((.(((.................))))))....................(((((((((((....)))))))...))))................. ( -9.77 = -10.73 +   0.96)

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 09:56:23 2006