Locus 3239

Sequence ID 2R_DroMel_CAF1
Location 11,060,646 – 11,060,766
Length 120
Max. P 0.759899
window5322

overview

Window 2

Location 11,060,646 – 11,060,766
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 71.55
Mean single sequence MFE -48.82
Consensus MFE -21.11
Energy contribution -22.75
Covariance contribution 1.64
Combinations/Pair 1.21
Mean z-score -1.86
Structure conservation index 0.43
SVM decision value 0.50
SVM RNA-class probability 0.759899
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11060646 120 - 20766785
UCCCGUCAGCCGUUCUUCUAGUCCUGGCUGUGUCCACCGGCCUGUGGGCCUGCUGCGUGGAGGGUGCAUCCACAGGAUCACCCUCGGCCACGGCCACCACCGCCAAGCCUAAGGGAUUUG
((((..((((((.....(((((....)))).).....))).)))(((((.((.((.((((((((((.((((...)))))))))))(((....)))..))))).)).))))).)))).... ( -50.00)
>DroVir_CAF1 8068 114 - 1
GCAAUCGAUGCUUGGCCCUAGUCCUG---CUGGCCAUGGGUCUGUGCGCCUG---CGCACAUGCCGCCGCCACGGGUGCACCCACAGCCACGGCCACCACGGAGAAGCCGAAGGGAUUUU
(((.....)))(((((.....(((((---.(((((.(((((.((((((....---)))))).)))...((...(((....)))...)))).))))).)).)))...)))))......... ( -42.50)
>DroPse_CAF1 7517 117 - 1
CACACCUAGCCCUGCUACUAGUCCUGGCGGUUGCCACCGGCCUGUGGGCCAA---CGUGGAUGGAGCCGCCACGGGAGCACCAUCGGCCACGGCCACCACACCUCAGCCGAAGGGCUUCU
.......(((((((((.....(((((((((((.((((.((((....))))..---.))))....)))))))).))))))....(((((...((........))...)))))))))))... ( -49.90)
>DroWil_CAF1 8199 108 - 1
CACAUUUAACCCUGCUACUAGUCCUGGCAAUAGCCACUGGCCUG--GCCC----------AGGGAGCUGCCACAGGAGCUCCCUCAGCCACGGCUACCACUGCCCAGCCGAAAGGAUUCU
...........(((....((((..((((....)))).(((((((--((..----------((((((((.(....).))))))))..)))).)))))..))))..)))((....))..... ( -41.00)
>DroAna_CAF1 7632 120 - 1
UCCAUUCAGCCCUUCUGCUAGUCCUGGCUGUGGCCACUGGCCUUUGGGUCAGCAGUGUUGAGGCGGCAGCCACUGGUGCUGCCGCGGCCACGGCUACCACUUCCAAACCGAAGGGAUUCG
.........((((((((..(((..(((((((((((.((((((....))))))..........(((((((((....).)))))))))))))))))))..)))..))....))))))..... ( -59.50)
>DroPer_CAF1 7518 117 - 1
CACACCCAGCCCUGCUACUAGUCCUGGCGGUUGCCACCGGCCUGUGGGCCAA---CGUGGAUGGAGCCGCCACGGGAGCACCAUCGGCCACGGCCACCACACCUCAGCCGAAGGGCUUCU
.......(((((((((.....(((((((((((.((((.((((....))))..---.))))....)))))))).))))))....(((((...((........))...)))))))))))... ( -50.00)
>consensus
CACAUCCAGCCCUGCUACUAGUCCUGGCGGUGGCCACCGGCCUGUGGGCCAG___CGUGGAGGGAGCCGCCACGGGAGCACCCUCGGCCACGGCCACCACAGCCAAGCCGAAGGGAUUCU
....................((..((((.((.(((...((((....)))).........(((((.((..........)).)))))))).)).))))..)).......((....))..... (-21.11 = -22.75 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:50 2006