Locus 6004

Sequence ID X_DroMel_CAF1
Location 15,420,867 – 15,420,971
Length 104
Max. P 0.846152
window9765

overview

Window 5

Location 15,420,867 – 15,420,971
Length 104
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.28
Mean single sequence MFE -39.57
Consensus MFE -21.47
Energy contribution -24.08
Covariance contribution 2.61
Combinations/Pair 1.04
Mean z-score -1.71
Structure conservation index 0.54
SVM decision value 0.77
SVM RNA-class probability 0.846152
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15420867 104 + 22224390
GACAGCAGUCCACUCGGCAUCGUGAAGUGGCUGCUCAAGCGGGCCAUUCCGUUCUGGAACAGGCUGCCCAGGAGACCUGUCGUCGAAAAAGGGCAG---UAAC-------------AAAA
(((((..(((..((.((((.(.((..((((((((....)).))))))(((.....))).)).).)))).))..))))))))(((.......)))..---....-------------.... ( -34.50)
>DroPse_CAF1 12810 98 + 1
GGUAGCAGGCCGCUGGCCAUCGUAAAGUGGCUACUCAAACGCGCCAUUCCACUGUGUAGGAUGCUGCCCAGCAGACCUGA--AAGGAACGGUGCGGAAGU--------------------
((((((.((((...))))..((.....))))))))....((((((.((((......((((.((((....))))..)))).--..)))).)))))).....-------------------- ( -36.20)
>DroSec_CAF1 11141 104 + 1
GACAGCAGUCCACUGGGCAUCGUGAAGUGGCUGCUCAAGCGGGCCAUUCCUUUCUGGAACAGGCUGCCCAGGAGACCUGUCGUCGAGAAAGGGCAG---UUAC-------------AAUA
(((((..(((..(((((((.(.((..((((((((....)).))))))(((.....))).)).).)))))))..))))))))(((.......)))..---....-------------.... ( -41.90)
>DroEre_CAF1 9155 120 + 1
GACAGCAGUCCACUGGGCAUCGUGAAGUGGCUGCUUAAGCGGGCCAUGCCGUUUUGGAACAGGCUGCCCAGGAGACCUGUCGGCGGAAAAGGUCACAUGUUACGGUCCAGUAUAAAAAUG
(((((..(((..(((((((.......((((((((....)).))))))((((((....))).))))))))))..))))))))...(((...(...........)..)))............ ( -42.00)
>DroYak_CAF1 9665 120 + 1
GACAGCAGUCCACUGGGCAUCGUGAAGUGGCUGCUCAAGCGCGCCAUGCCGUUUUGGAACAGGCUGCCCAGGAGACCUGUCGAGGGAAUAGAACAGAUGUUACGUUCCAGUAAAGAAAAA
(((((..(((..(((((((.......((((((((....))).)))))((((((....))).))))))))))..))))))))...(((((..(((....)))..)))))............ ( -46.60)
>DroPer_CAF1 12741 98 + 1
GGUAGCAGGCCGCUGGCCAUCGUAAAGUGGCUACUCAAACGCGCCAUUCCACUGUGUAGGAUGCUGCCCAGCAGACCUGA--AAGGAACGGUGCGGAAGU--------------------
((((((.((((...))))..((.....))))))))....((((((.((((......((((.((((....))))..)))).--..)))).)))))).....-------------------- ( -36.20)
>consensus
GACAGCAGUCCACUGGGCAUCGUGAAGUGGCUGCUCAAGCGCGCCAUUCCGUUCUGGAACAGGCUGCCCAGGAGACCUGUCGACGGAAAAGGGCAGA_GUUAC_____________AA_A
(((((..(((..(((((((.(.((..((((((((....))).))))).((.....))..)).).)))))))..))))))))....................................... (-21.47 = -24.08 +   2.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:55 2006