Locus 3657

Sequence ID 3R_DroMel_CAF1
Location 9,896,350 – 9,896,452
Length 102
Max. P 0.947129
window5875

overview

Window 5

Location 9,896,350 – 9,896,452
Length 102
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 72.61
Mean single sequence MFE -16.88
Consensus MFE -9.28
Energy contribution -10.08
Covariance contribution 0.80
Combinations/Pair 1.26
Mean z-score -1.99
Structure conservation index 0.55
SVM decision value 1.37
SVM RNA-class probability 0.947129
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9896350 102 + 27905053
UUUUGAGUUUGAUUUGGCAGGGGCGUUGAAAUGAAACGUGCAAAUACUGGAAAUAAUCAAAUUCAGUCAAAAAAAAAAAACUUAAGAAA---UAGAG-AAA-AAAGA
..((((((((((((...((((.(((((.......))))).).....))).....))))))))))))..............(((.(....---).)))-...-..... ( -17.90)
>DroVir_CAF1 116364 87 + 1
UUUUCCUUUACAUUUGGCAAAUCCAAUGAAAUGAAACGUGCAAAUACUGGAA-UAAUUGUGCACGGU----AG-----------AAAUC---UUGAA-AGACAGACU
......(((((..((((.....))))..........((((((..........-......))))))))----))-----------)....---.....-......... ( -11.69)
>DroSec_CAF1 99760 98 + 1
UUUUGAGUUUGAUUUGGCAUGGGCGUUGAAAUGAAACGUGCAAAUACUGGAAAUAAUCAAAUUCAGU----AAAAAAAAACUUAAGAAA---UAGAG-AAA-AAAGA
((((((((((..(((.(((((..(((....)))...)))))...(((((((..........))))))----))))..))))))))))..---.....-...-..... ( -19.80)
>DroEre_CAF1 100626 106 + 1
UUCUGAGUUUGAUUUGGCAGGGGCGUUGAAAUGAAACGUGCAAAUACUGGAAAUAAUCAAAUUUAGGCAAAAAAAAGAAGAGAAGAGCAGCGCAGAGCAAA-AAAGA
.(((((((((((((...((((.(((((.......))))).).....))).....)))))))))))))......................((.....))...-..... ( -19.70)
>DroYak_CAF1 103053 104 + 1
UUUUGAGUUUGAUUUGGCAGGGGCGUUGAAAUGAAACGUGCAAAUACUGGAAAUAAUCAAAUUUAGGCACAAAAAAAAGAAAUAAAGUAUAGUAAAGAAAA-AAA--
.(((((((((((((...((((.(((((.......))))).).....))).....)))))))))))))..................................-...-- ( -15.30)
>consensus
UUUUGAGUUUGAUUUGGCAGGGGCGUUGAAAUGAAACGUGCAAAUACUGGAAAUAAUCAAAUUCAGUCA_AAAAAAAAAAAUUAAAAAA___UAGAG_AAA_AAAGA
..((((((((((((..(((.(..(((....)))...).))).............))))))))))))......................................... ( -9.28 = -10.08 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:43 2006