Locus 6094

Sequence ID 2R_DroMel_CAF1
Location 19,170,831 – 19,170,921
Length 90
Max. P 0.509948
window9762

overview

Window 2

Location 19,170,831 – 19,170,921
Length 90
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 79.46
Mean single sequence MFE -22.94
Consensus MFE -13.21
Energy contribution -12.85
Covariance contribution -0.36
Combinations/Pair 1.30
Mean z-score -1.62
Structure conservation index 0.58
SVM decision value -0.05
SVM RNA-class probability 0.509948
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19170831 90 + 20766785
------CACGGCGUUCGUUAUUUAUUUGA--------AAACCUAAAUGAGCCUGAGUGUAUGGCGAAAGCCAUUACUUGUUCAUUUUAAUAUGGUCGG--G-CUAAA
------...((..((((.........)))--------)..))......((((((((((.(((((....))))))))....((((......))))))))--)-))... ( -26.80)
>DroPse_CAF1 65334 98 + 1
AGGGGGCAGGGCGCUCUUUAUUUAUUUGA--------AAACUUAAAUGAGCCAAAGUGAACAGCGAAAGCCAUUAUUUGUUCGUUUUAAUAUGGCCCGCGU-CUAAA
.(((.((.((((((((...(((((..(..--------..)..))))))))).((((((((((((....)).......))))))))))......)))))).)-))... ( -28.11)
>DroEre_CAF1 62213 90 + 1
------CACGGCGUUCGUUAUUUAUUUGA--------AAACCUAAAUGAGCCCGAGUGUAUGGCAAAAGCCAUUACUUGUUCAUUUUAAUAUGGUCGG--G-CUAAA
------...((..((((.........)))--------)..))......((((((((((.(((((....))))))))....((((......))))))))--)-))... ( -25.30)
>DroWil_CAF1 84980 95 + 1
------UACG----UCGUUAUUUAUUUGAGAAGAAGCAAACUUAAAAGAAACCAAGUGAACAGCAAAAGCCAUUAUUUGUUCUUUUUAAUAUGGUCGA-AG-CUAAA
------....----(((((((....((((((((((.....((....))....(((((((...((....))..))))))))))))))))).)))).)))-..-..... ( -13.50)
>DroAna_CAF1 64885 91 + 1
------UACAGCGUUCGUUAUUUAUUUGA--------AAACUUAAAUGAGGCUGAGUGAACAGCGAAAGCCAUUACUUGUACAUUUUAAUAUGGUCGG--UUCUAAA
------..((((.((((((..........--------.......))))))))))...((((.((....))...........(((......)))....)--))).... ( -15.83)
>DroPer_CAF1 65290 98 + 1
AGGGGGCAGGGCGCUCUUUAUUUAUUUGA--------AAACUUAAAUGAGCCAAAGUGAACAGCGAAAGCCAUUAUUUGUUCGUUUUAAUAUGGCCCGCGU-CUAAA
.(((.((.((((((((...(((((..(..--------..)..))))))))).((((((((((((....)).......))))))))))......)))))).)-))... ( -28.11)
>consensus
______CACGGCGUUCGUUAUUUAUUUGA________AAACUUAAAUGAGCCAAAGUGAACAGCGAAAGCCAUUACUUGUUCAUUUUAAUAUGGUCGG__G_CUAAA
........((((.....(((......)))..............((((((((..((((((...((....))..)))))))))))))).......)))).......... (-13.21 = -12.85 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:38 2006