Locus 9236

Sequence ID 3R_DroMel_CAF1
Location 24,630,799 – 24,630,906
Length 107
Max. P 0.870339
window14765

overview

Window 5

Location 24,630,799 – 24,630,906
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.09
Mean single sequence MFE -26.83
Consensus MFE -15.78
Energy contribution -16.08
Covariance contribution 0.31
Combinations/Pair 1.16
Mean z-score -2.13
Structure conservation index 0.59
SVM decision value 0.87
SVM RNA-class probability 0.870339
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24630799 107 + 27905053
---AAUCACAAUCACAGGUAACUGCUACAUGUGUAAAUAUUUACAAAACGCGCCAA--GCGUCGACAAACCGACGCCAGG---CAUCUUCACUUUUGCCGCCAACGAGCGGU-----CCU
---............(((..((((((...(((((((....)))))....((.....--((((((......))))))..((---((..........))))))))...))))))-----))) ( -28.00)
>DroVir_CAF1 127911 102 + 1
-----UAACAAUCACAGGUAACUGCUACAUGUGUAAAUAUUUACAAAACGCGCCAAAAACGUUGGCAAACAGACGCCAGG---CGCCUACACUUGUACCGUUGCUCA----------UCA
-----...........((((((.(.((((.(((((..............(((((........((((........))))))---))).))))).))))).))))))..----------... ( -24.26)
>DroPse_CAF1 124617 112 + 1
UA------CAAUCACAGGUAACGGCUACAUGUGUAAAUAUUUACAAAACGCGCCAA--GCGUCGGCAAACUGACGCCAGCCGCCAUCUUCACUUUUGCCGCCAUCUAGCGGGCUAUACAC
..------.......((((..(((((.....(((((....)))))...........--(((((((....))))))).)))))..)))).........((((......))))......... ( -28.40)
>DroEre_CAF1 117850 110 + 1
UACAAUCACAAUCACAGGUAACUGCUACAUGUGUAAAUAUUUACAAAACGCGCCAA--GCGUCGACAAACCGACGCCAAG---CAUCUUCACUUUUGCCGCCAACGAGCGGU-----GCU
......((((....(((....))).....))))................(((((..--((((((......))))))....---.............((((....)).)))))-----)). ( -26.40)
>DroWil_CAF1 122484 103 + 1
AA------CAAUCACAGGUAACAGCUACAUGUGUAAAUAUUUACAAAACGCGCCAA--GCGUCGGCAAACUGACGCCAGG---CAUCUUCACUUUUACCGUUUUCUCUCAC------UCC
..------........(((((..((......(((((....)))))....))(((..--(((((((....)))))))..))---)..........)))))............------... ( -25.50)
>DroPer_CAF1 104363 112 + 1
UA------CAAUCACAGGUAACGGCUACAUGUGUAAAUAUUUACAAAACGCGCCAA--GCGUCGGCAAACUGACGCCAGCCGCCAUCUUCACUUUUGCCGCCAUCUAGCGGGCUAUACAC
..------.......((((..(((((.....(((((....)))))...........--(((((((....))))))).)))))..)))).........((((......))))......... ( -28.40)
>consensus
UA______CAAUCACAGGUAACUGCUACAUGUGUAAAUAUUUACAAAACGCGCCAA__GCGUCGGCAAACUGACGCCAGG___CAUCUUCACUUUUGCCGCCAUCUAGCGG______CCC
................(((((..((......(((((....)))))....)).......(((((((....)))))))..................)))))..................... (-15.78 = -16.08 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:29:31 2006