Locus 3673

Sequence ID 3R_DroMel_CAF1
Location 9,959,298 – 9,959,403
Length 105
Max. P 0.633851
window5896

overview

Window 6

Location 9,959,298 – 9,959,403
Length 105
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 79.52
Mean single sequence MFE -30.47
Consensus MFE -18.88
Energy contribution -18.85
Covariance contribution -0.03
Combinations/Pair 1.14
Mean z-score -1.58
Structure conservation index 0.62
SVM decision value 0.21
SVM RNA-class probability 0.633851
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9959298 105 + 27905053
GUGUCUGCCGUCUGCCUUUAAUGAGCCCAUUCGCAUGCUCACCUGGAGUCGUGUGAAAGGUGAAAUAUAUACUUAUGUACGUACUUAUG--------UUGGGCAGCUCAAUCU
.........(.((((((...(((((.((.(((((((((((.....))).)))))))).)).....((..(((....)))..))))))).--------..)))))))....... ( -30.80)
>DroVir_CAF1 55235 84 + 1
GCAG-------ACGCGCUUAAUGAGCUCAUUCGUAUGCGCGCGGGGAGUCAUGUGAAAGGUGAA-UA-CUACUUAU-------CGCAUA--------UUGGUCUGCC-----U
((((-------((((((...(((((....)))))..))))..........((((((.(((((..-..-.))))).)-------))))).--------...)))))).-----. ( -28.40)
>DroSec_CAF1 41939 105 + 1
GCGUCUGCCGUCUGCCUUUAAUGAGCCCAUUCGCAUGCUCAGCUGGAGUCGUGUGAAAGGUGAAAUAUAUACUUAUGUACGUACUUAUG--------UUGGGCAGCUCAAUCU
.........(.((((((...(((((.((.(((((((((((.....))).)))))))).)).....((..(((....)))..))))))).--------..)))))))....... ( -30.80)
>DroSim_CAF1 42128 105 + 1
GCGUCUGCCGUCUGCCUUUAAUGAGCCCAUUCGCAUGCUCAGCUGGAGUCGUGUGAAAGGUGAAACAUAUACUUAUGUACGUACUUAUG--------UUGGGCAGCUCAAUCU
.........(.((((((...(((((.((.(((((((((((.....))).)))))))).))....(((((....))))).....))))).--------..)))))))....... ( -32.10)
>DroEre_CAF1 46222 102 + 1
GCGU-------CUGCCUUUAAUGAGCUCAUUCGCAUGCUCACCUGGAGUCGUGUGAAAGGUGGAAUAUAUACUGAUGU----ACUUAUGCUGGGCAGUUGGGCAGCUCAAUCU
((.(-------((((((...(((((..(((((((((((((.....))).)))))))).((((.......))))..)).----.)))))...))))))..).)).......... ( -30.80)
>DroYak_CAF1 44512 94 + 1
GCGU-------CUGCCUUUAAUGAGCUCAUUCGCAUGCUCACCUGGAGUCGUGUGAAAGGUGGAAUAUAUACUUAUGU----ACUUAUG--------UUGGGCAGCUCAAUCU
(.(.-------((((((...(((((..(((((((((((((.....))).))))))))(((((.......))))).)).----.))))).--------..))))))).)..... ( -29.90)
>consensus
GCGU_______CUGCCUUUAAUGAGCCCAUUCGCAUGCUCACCUGGAGUCGUGUGAAAGGUGAAAUAUAUACUUAUGU____ACUUAUG________UUGGGCAGCUCAAUCU
........................((((((((((((((((.....))).))))))))(((((.......)))))........................))))).......... (-18.88 = -18.85 +  -0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:03 2006