Locus 2490

Sequence ID 2L_DroMel_CAF1
Location 6,851,959 – 6,852,079
Length 120
Max. P 0.991167
window3985 window3986

overview

Window 5

Location 6,851,959 – 6,852,079
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.06
Mean single sequence MFE -31.32
Consensus MFE -21.32
Energy contribution -22.16
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -2.29
Structure conservation index 0.68
SVM decision value 2.25
SVM RNA-class probability 0.991167
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6851959 120 + 22407834
UUUUACUUCUUUUUUCGAGAGCAUUAGUCGCAAGUGCGUCUUCGCUAGCUUUGGAAUGUGUACUCGCUAAUAUGGAAGUAUGUACACACUGCAUAGAAUGAAAAAACGCUAUCUUAUUCC
.........((((((((..(((...((.(((....))).))..)))..((.((.(.(((((((..(((........)))..))))))).).)).))..)))))))).............. ( -26.70)
>DroSec_CAF1 56332 104 + 1
UUUUGCUUCUUUUUUCGAGAGCAUUAGUCGCAAGUGCGUCUUCGCUAACUUUGGAGUGUGUACUCGCUAACAUGAAAGUGUGUACACACU----------------CGCUAUCAUUUUCC
...((((.(((.....)))))))......(((((((((....)))..))))..((((((((((.((((........)))).)))))))))----------------)))........... ( -31.90)
>DroSim_CAF1 48083 104 + 1
UUUUGUUUCUUUUUUCGAGCGCAUUAGUCGCAAGUGCGUCUUCGCUAGCUUUGGAGUGUGUACUCGCUAAAAUGGAAGUGUGUACACACU----------------CGCUAUCAUUUUCC
.................(((((...((.(((....))).))..))........((((((((((.((((........)))).)))))))))----------------)))).......... ( -32.60)
>DroEre_CAF1 55968 118 + 1
UUUUGCCACUUUUU--CAGAGCUCAAGUCGCAAGUGCGUCUUUGCUAGCAUUGGAGUGUGUACUCGCUAACUCGAAAGUGUGUACACACUGCCUAGAAUGUAAAAUCUUGUACAUCCUUC
..((((.((((...--........)))).))))(((((..(((((...(...(((((((((((.((((........)))).))))))))).))..)...)))))....)))))....... ( -32.80)
>DroYak_CAF1 54093 118 + 1
UUUUGCUCCUUUUU--GAGAGUUUGAGUCUCGAAUGCGUCUUUGCUAACGUUGGAGUGUGUACUCGCUAACUGGGCAGUGUGUACACACCGCAUACAAUGUAAAAUCACUUACAUUUUCC
............((--((((.......))))))((((((((..((....)).)))((((((((.((((........)))).)))))))))))))..(((((((......))))))).... ( -32.60)
>consensus
UUUUGCUUCUUUUUUCGAGAGCAUUAGUCGCAAGUGCGUCUUCGCUAGCUUUGGAGUGUGUACUCGCUAACAUGGAAGUGUGUACACACUGC_UA_AAUG_AAAA_CGCUAUCAUUUUCC
...................(((...((.(((....))).))..)))........(((((((((.((((........)))).))))))))).............................. (-21.32 = -22.16 +   0.84)

alignment

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secondary structure

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dotplot

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Window 6

Location 6,851,959 – 6,852,079
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.06
Mean single sequence MFE -28.94
Consensus MFE -15.66
Energy contribution -15.58
Covariance contribution -0.08
Combinations/Pair 1.16
Mean z-score -2.11
Structure conservation index 0.54
SVM decision value 1.27
SVM RNA-class probability 0.938121
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6851959 120 - 22407834
GGAAUAAGAUAGCGUUUUUUCAUUCUAUGCAGUGUGUACAUACUUCCAUAUUAGCGAGUACACAUUCCAAAGCUAGCGAAGACGCACUUGCGACUAAUGCUCUCGAAAAAAGAAGUAAAA
.......((.((((((...((......((.(((((((((...((........))...))))))))).))..((..(((....)))....))))..)))))).))................ ( -23.90)
>DroSec_CAF1 56332 104 - 1
GGAAAAUGAUAGCG----------------AGUGUGUACACACUUUCAUGUUAGCGAGUACACACUCCAAAGUUAGCGAAGACGCACUUGCGACUAAUGCUCUCGAAAAAAGAAGCAAAA
......(((.((((----------------(((((((((.(.((........)).).))))))))))....((((((((((.....))).)).)))))))).)))............... ( -27.80)
>DroSim_CAF1 48083 104 - 1
GGAAAAUGAUAGCG----------------AGUGUGUACACACUUCCAUUUUAGCGAGUACACACUCCAAAGCUAGCGAAGACGCACUUGCGACUAAUGCGCUCGAAAAAAGAAACAAAA
.........(((((----------------(((((((((.(.((........)).).))))))))))....))))(((.((.(((....))).))....))).................. ( -27.50)
>DroEre_CAF1 55968 118 - 1
GAAGGAUGUACAAGAUUUUACAUUCUAGGCAGUGUGUACACACUUUCGAGUUAGCGAGUACACACUCCAAUGCUAGCAAAGACGCACUUGCGACUUGAGCUCUG--AAAAAGUGGCAAAA
..((((((((........)))))))).((.(((((((((.(.((........)).).)))))))))))..(((((((.(((.(((....))).)))..)).((.--....)))))))... ( -35.10)
>DroYak_CAF1 54093 118 - 1
GGAAAAUGUAAGUGAUUUUACAUUGUAUGCGGUGUGUACACACUGCCCAGUUAGCGAGUACACACUCCAACGUUAGCAAAGACGCAUUCGAGACUCAAACUCUC--AAAAAGGAGCAAAA
....((((((((....))))))))...(((.((((((((.(.(((......))).).))))))))(((..((((......)))).....((((.......))))--.....))))))... ( -30.40)
>consensus
GGAAAAUGAUAGCG_UUUU_CAUU_UA_GCAGUGUGUACACACUUCCAUGUUAGCGAGUACACACUCCAAAGCUAGCGAAGACGCACUUGCGACUAAUGCUCUCGAAAAAAGAAGCAAAA
..............................(((((((((.(.((........)).).))))))))).........((..((.(((....))).))...)).................... (-15.66 = -15.58 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:06 2006