Locus 5727

Sequence ID 2R_DroMel_CAF1
Location 18,152,226 – 18,152,343
Length 117
Max. P 0.971046
window9172

overview

Window 2

Location 18,152,226 – 18,152,343
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.70
Mean single sequence MFE -26.06
Consensus MFE -10.60
Energy contribution -9.60
Covariance contribution -1.00
Combinations/Pair 1.33
Mean z-score -2.18
Structure conservation index 0.41
SVM decision value 1.67
SVM RNA-class probability 0.971046
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18152226 117 + 20766785
UAUACAAAUGAACUCGUCUGUGUGUUCUUUAAUUUGUCGCAAGUGUGCAAAUCAGAAAAAUGUGACGAACCGAGCGUUGUUUAUCAACAAC---AAAGAGAAAAAACAGACAGAACAUGG
.......(((..((.((((((...((((((..(((((((((..(.((.....)).)....)))))))))......((((((....))))))---..))))))...))))))))..))).. ( -29.00)
>DroPse_CAF1 6216 99 + 1
UUUACAUA------CAGCUGUAUGCUCUUUUAAUUGUCGCAUAUAUGCAAAUCACAAAAAUGUGACA----GAAGUUUGUUUACCAGCAAA---AAGAGGCACA-----GCGCAAGC---
........------..(((((..((.(((((..(((((((((.(.((.......)).).))))))))----)...(((((......)))))---))))))))))-----))......--- ( -23.10)
>DroSim_CAF1 690 112 + 1
UAUACAAACGAACUCGUCUGUGUGUUCUUUAAAUUGUCGCAAGUGUGUAAAUCAGAAAAAUGUGACGAACCGAGCGUUGUUUAUCAACAAC---AAAGGGAAAA-----GCAGAACAUGG
.(((((.(((....))).)))))(((((.....((((((((..(.((.....)).)....)))))))).((....((((((....))))))---...)).....-----..))))).... ( -26.40)
>DroYak_CAF1 741 115 + 1
UAUACAAACGCACUCGUCAGUGUGUUGUUUAAAUUGUCGCAAGUGUGUAAAUCAGAAAAAUGUGACGAACCGAGCGAUGUUUAUCAACAACAACAAAGCGAACA-----GCACAAGAUGG
..............((((..((((((((((...((((((((..(.((.....)).)....)))))))).....((..((((..........))))..)))))))-----))))).)))). ( -28.20)
>DroPer_CAF1 6348 98 + 1
UUUACAUA------CAGCAGUUUGCUCUUUUAAUUGUCGCAUAUGUGCAAAUCACAAAAAUGUGACA----GAAGUUUGUUUACCAGCAAA----AUAGGCACA-----GCGCAAAC---
........------.....((((((.((.....(((((((((.((((.....))))...))))))))----)..((((((((.......))----))))))..)-----).))))))--- ( -23.60)
>consensus
UAUACAAA_G_ACUCGUCUGUGUGUUCUUUAAAUUGUCGCAAGUGUGCAAAUCAGAAAAAUGUGACGAACCGAGCGUUGUUUAUCAACAAC___AAAGGGAACA_____GCACAACAUGG
......................(((.((((...((((((((..(.((.....)).)....))))))))...))))((((((....))))))..................)))........ (-10.60 =  -9.60 +  -1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:50 2006