Locus 8154

Sequence ID 3L_DroMel_CAF1
Location 21,497,099 – 21,497,259
Length 160
Max. P 0.803763
window13321 window13322

overview

Window 1

Location 21,497,099 – 21,497,219
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -24.84
Consensus MFE -23.23
Energy contribution -23.13
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -1.57
Structure conservation index 0.94
SVM decision value 0.00
SVM RNA-class probability 0.534313
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21497099 120 - 23771897
UUAAUAGAGCAUUGCACAUGAAUUUCCAGGUGCUCAGCUAAUUGUUUGACUAAUCAGCGCACAAAAUGAACUGAUAGCAAUUAAGUAGUACAUCGCUAAAUGUACACAAGAAUUAAUUUA
(((((..(((...((((.((......)).))))...)))..(((((((.(((.((((..((.....))..)))))))))).......((((((......))))))))))..))))).... ( -23.40)
>DroSec_CAF1 2446 120 - 1
UUAAUAGAGCAUUGCACAUGAAUUUCCAGAUGCUCAGCUAAUUGCUUGACUAAUCAGCGCACACAAUGAACUGAUAGCAAUUAAGUAGUACAUCGCUCGAAGUACACAAGAAUGAAUUAA
......(((((((...............))))))).((((((((((......(((((..((.....))..)))))))))))).))).((((.((....)).))))............... ( -25.56)
>DroSim_CAF1 2309 120 - 1
UUAAUAGAGCAUUGCACAUGAAUUUCCAGAUGCUCAGCUAAUUGCUUGACUAAUCAGCGCACACAAUGAACUGAUAGCAAUUAAGUAGUACAUCGCUCGAAGUACACAAGAAUGAAUUUA
......(((((((...............))))))).((((((((((......(((((..((.....))..)))))))))))).))).((((.((....)).))))............... ( -25.56)
>consensus
UUAAUAGAGCAUUGCACAUGAAUUUCCAGAUGCUCAGCUAAUUGCUUGACUAAUCAGCGCACACAAUGAACUGAUAGCAAUUAAGUAGUACAUCGCUCGAAGUACACAAGAAUGAAUUUA
......(((((((...............))))))).((((((((((......(((((..((.....))..)))))))))))).))).((((.((....)).))))............... (-23.23 = -23.13 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 21,497,139 – 21,497,259
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -31.29
Consensus MFE -30.13
Energy contribution -29.69
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -1.86
Structure conservation index 0.96
SVM decision value 0.63
SVM RNA-class probability 0.803763
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21497139 120 - 23771897
CAAGGCUUUAAGGUUGUGGGUGGCUUUUAAAGAUUAGUUAUUAAUAGAGCAUUGCACAUGAAUUUCCAGGUGCUCAGCUAAUUGUUUGACUAAUCAGCGCACAAAAUGAACUGAUAGCAA
....(((...((.(..(..((((((......(((((((((.......(((...((((.((......)).))))...))).......)))))))))))).)))...)..).))...))).. ( -31.54)
>DroSec_CAF1 2486 120 - 1
UAAGGCUUUAAGGUUGUGGGUGGCUUCUAAAGAUUAGUUAUUAAUAGAGCAUUGCACAUGAAUUUCCAGAUGCUCAGCUAAUUGCUUGACUAAUCAGCGCACACAAUGAACUGAUAGCAA
....(((....((((.((.((((((......(((((((((......(((((((...............)))))))(((.....))))))))))))))).))).))...))))...))).. ( -31.16)
>DroSim_CAF1 2349 120 - 1
UAAGGCUUUAAGGUUGUGGGUGGCUUCUAAAGAUUAGUUAUUAAUAGAGCAUUGCACAUGAAUUUCCAGAUGCUCAGCUAAUUGCUUGACUAAUCAGCGCACACAAUGAACUGAUAGCAA
....(((....((((.((.((((((......(((((((((......(((((((...............)))))))(((.....))))))))))))))).))).))...))))...))).. ( -31.16)
>consensus
UAAGGCUUUAAGGUUGUGGGUGGCUUCUAAAGAUUAGUUAUUAAUAGAGCAUUGCACAUGAAUUUCCAGAUGCUCAGCUAAUUGCUUGACUAAUCAGCGCACACAAUGAACUGAUAGCAA
....(((...((.(..(..((((((......(((((((((......(((((((...............)))))))(((.....))))))))))))))).)))...)..).))...))).. (-30.13 = -29.69 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:44 2006