Locus 6125

Sequence ID 2R_DroMel_CAF1
Location 19,265,241 – 19,265,354
Length 113
Max. P 0.717754
window9808

overview

Window 8

Location 19,265,241 – 19,265,354
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.30
Mean single sequence MFE -32.68
Consensus MFE -19.60
Energy contribution -20.66
Covariance contribution 1.06
Combinations/Pair 1.13
Mean z-score -1.77
Structure conservation index 0.60
SVM decision value 0.39
SVM RNA-class probability 0.717754
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19265241 113 + 20766785
GCAAGAUGUCCGUUCAAGAGAGUUCCUCCCGUGAUAUCUC-------UCACAUUACUUACAUAACCAUUUCCGCAGGCCGAUCCUUCGGCCGCUGGCCUGUAGGCCACACAGUAUCCCGU
(..(((((((((.....(((.....))).)).))))))).-------.)....((((...............((.((((((....))))))))(((((....)))))...))))...... ( -32.20)
>DroSec_CAF1 15377 113 + 1
GCAAGCUGUCUGUUCAAGGGAGUUUCUCCCGUGCCAAUUC-------CCACAUUACUUACAUAACCAUUUCCGCAGGCCGAUCCCUCGGCCGCUGGUCUGUAGGCCACACAGUAUCCCGU
....(((((.((.....(((((...)))))(((.......-------.)))....((((((..((((.....((.((((((....)))))))))))).)))))).)).)))))....... ( -34.20)
>DroSim_CAF1 4764 111 + 1
G--AGUUGUCCUUCCAAGGGAGCUUCUCCCGUGCCAACUC-------UCACAUUACUUACAUAACCAUUUCCGCAGGCCGAUCCCUCGGCCGCUGGUCUGUAGGCCACACAGUAUCCCGU
(--(((((......((.(((((...))))).)).))))))-------........((((((..((((.....((.((((((....)))))))))))).))))))................ ( -32.40)
>DroEre_CAF1 7992 120 + 1
GCGAGCUGUCCGUUCAAGGGAACUUCUUGCGUGGUAGCUCAGAAUGAUCGCAUUACUUACAUAACCAUUUCCGCAGGCCGAUCCCUCGGCCGCUGGCCUGUAGGCCACACAGUAUCCCGU
((((((((.(((..(((((.....)))))..))))))))).((....))))..((((...............((.((((((....))))))))(((((....)))))...))))...... ( -40.90)
>DroWil_CAF1 18594 95 + 1
CCAAGUUGCCUUAUU-----AGUUUU-------------------U-CGUCUGUACUUACAUAACCAUUACCACAUGCCGAACCUUCGGCAGCUGGUCUGUAGGCCACACAGUAACCCGU
....((.((((...(-----((....-------------------.-....(((....)))........((((..((((((....))))))..))))))).)))).))............ ( -21.20)
>DroYak_CAF1 4802 113 + 1
GCAAGCUGUCCGUUCAAGGGAACUUCUGGCGUGAUAGCUC-------UCACAUUACUUACAUAACCAUUUCCACAGGCCGAUCCCUCGGCCGCUGGUCUGUAGGCAACACAGUAACCCGU
((.(((((((((((.(((....)))..)))).))))))).-------............................((((((....)))))))).(((((((.(....)))))..)))... ( -35.20)
>consensus
GCAAGCUGUCCGUUCAAGGGAGCUUCUCCCGUGAUAACUC_______UCACAUUACUUACAUAACCAUUUCCGCAGGCCGAUCCCUCGGCCGCUGGUCUGUAGGCCACACAGUAUCCCGU
.................((((.........(((...............)))..((((..................((((((....))))))(.(((((....))))))..)))))))).. (-19.60 = -20.66 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:23 2006