Locus 6302

Sequence ID X_DroMel_CAF1
Location 15,966,209 – 15,966,392
Length 183
Max. P 0.585966
window10270 window10271

overview

Window 0

Location 15,966,209 – 15,966,312
Length 103
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 76.56
Mean single sequence MFE -15.48
Consensus MFE -10.00
Energy contribution -9.88
Covariance contribution -0.12
Combinations/Pair 1.17
Mean z-score -1.62
Structure conservation index 0.65
SVM decision value 0.11
SVM RNA-class probability 0.585966
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15966209 103 - 22224390
UUUGCUAGCAAGGAUUAUAAAUUAAAUAUUCUCGCAGUCACAUACAAGAGAAUUAUUUAAAUAUUACAAACU-------------AUAAGCCAAUUAAAAACAAAAAACUGUUGCA
.......((..((.(((((..((((((((((((...((.....))..))))).)))))))...........)-------------)))).)).......((((......)))))). ( -11.62)
>DroSec_CAF1 34391 103 - 1
UUGGCUAGCAAGGAUUAUAUAUUAAAUAUCCUCGCAGUCACAUACAAAAUAAUGAUUAAAAUAUUACAAAUU-------------AUAAGCCAAUUUAAAACAAAAAACUGUUGCA
((((((.((.(((((............))))).))(((((............)))))...............-------------...)))))).....((((......))))... ( -16.20)
>DroSim_CAF1 25426 103 - 1
UUGGCUAGCAAGGAUUAUAUAUUAAAUAUCCUCGCAGUCACAUAUAAGAAAAGGAUUAAAAUAUUACAAAUU-------------AUAAGCCAAUUAAAAACAGAAAACUGUUGCA
((((((.((.(((((............))))).)).......(((((......(((......))).....))-------------))))))))).....(((((....)))))... ( -19.00)
>DroYak_CAF1 17464 108 - 1
UUGGCUAGCAAGGAUUACAUUUUAAAUAUCCUCGUAGUCACAUACAAAAUUAAGUUUAAC-----UCAAAUUGAUCAAGAACAAUGUAAAAAUAUUUGACACAGAUA---UUUGCA
.((((((.(.(((((............))))).))))))).............((((...-----((.....))....))))..(((((..(((((((...))))))---)))))) ( -15.10)
>consensus
UUGGCUAGCAAGGAUUAUAUAUUAAAUAUCCUCGCAGUCACAUACAAAAUAAUGAUUAAAAUAUUACAAAUU_____________AUAAGCCAAUUAAAAACAAAAAACUGUUGCA
.(((((.((.(((((............))))).)))))))............................................................................ (-10.00 =  -9.88 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,966,276 – 15,966,392
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 90.95
Mean single sequence MFE -16.78
Consensus MFE -13.72
Energy contribution -14.10
Covariance contribution 0.37
Combinations/Pair 1.07
Mean z-score -1.43
Structure conservation index 0.82
SVM decision value 0.01
SVM RNA-class probability 0.536350
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15966276 116 + 22224390
UGCGAGAAUAUUUAAUUUAUAAUCCUUGCUAGCAAAAAGUUCAAUCGCAUUAAACUUAAUGAUACCAUUUCAUUUCAAGCUUACGUCUGACUUCUAACUCUUUUGUCAACACUACU
.(((((..................))))).(((...(((((.(((...))).)))))(((((.......)))))....)))...((.((((.............))))))...... ( -11.79)
>DroSec_CAF1 34458 115 + 1
UGCGAGGAUAUUUAAUAUAUAAUCCUUGCUAGCCAA-AGUUCAAUCCCAUUAGACUUAAUGAUACCAUUUCAUUUCAAGCUUACGUCUGACUUCUAACUCUUUUGUCAACACUACU
.((((((((............)))))))).(((..(-(((..(((...)))..))))(((((.......)))))....)))...((.((((.............))))))...... ( -17.92)
>DroSim_CAF1 25493 116 + 1
UGCGAGGAUAUUUAAUAUAUAAUCCUUGCUAGCCAAAAGUUCAAUCCCAUUAGACUUAAUGAUACCAUUUCAUUUUAAGCUUACGUCUGACUUCUAACUCUUUUGUCAACACUACU
.((((((((............))))))))..(.((((((..........((((((..(((((.......)))))..........)))))).........)))))).)......... ( -19.71)
>DroYak_CAF1 17536 113 + 1
UACGAGGAUAUUUAAAAUGUAAUCCUUGCUAGCCAAGAGUUCAAUCUCAACCAACUUAAUGAUACCAUUUCAUUAUCAGCUUACGUCUGACUUCCAACUCUUUUGUCAACAC---U
..(((((((............)))))))......(((((((...............((((((.......))))))(((((....).)))).....)))))))..........---. ( -17.70)
>consensus
UGCGAGGAUAUUUAAUAUAUAAUCCUUGCUAGCCAAAAGUUCAAUCCCAUUAAACUUAAUGAUACCAUUUCAUUUCAAGCUUACGUCUGACUUCUAACUCUUUUGUCAACACUACU
.((((((((............)))))))).(((...(((((...........)))))(((((.......)))))....)))...((.((((.............))))))...... (-13.72 = -14.10 +   0.37)

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 12:10:03 2006