Locus 7361

Sequence ID X_DroMel_CAF1
Location 18,359,574 – 18,359,691
Length 117
Max. P 0.998230
window12062 window12063

overview

Window 2

Location 18,359,574 – 18,359,665
Length 91
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 68.46
Mean single sequence MFE -31.65
Consensus MFE -17.37
Energy contribution -17.37
Covariance contribution -0.00
Combinations/Pair 1.12
Mean z-score -2.44
Structure conservation index 0.55
SVM decision value 3.04
SVM RNA-class probability 0.998230
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18359574 91 + 22224390
UCGGAUUC--------CUUGGGCACUGAACAGAGUUCGCAGUUCCAAAUACUGGGUGC-UGGGUAACU-GGU-CUGAGUACUGAGUACUGAGUACUUGGCAC
.(((((((--------..((..(...)..)))))))))..((.((((.((((.(((((-(.((((.((-...-...)))))).)))))).)))).)))).)) ( -28.70)
>DroSim_CAF1 4699 71 + 1
UCGGAUUC--------CUUGGGCACUGAACUGAGCUCGGAGUUCCAAGUACUGGGUGC-UGGG----------------------UACUGAGUACUUGGCAC
..((((((--------(..((((.(......).)))))))))))((((((((.(((((-...)----------------------)))).)))))))).... ( -29.00)
>DroEre_CAF1 4418 71 + 1
UCGGGUUC--------CUUGGGCACUCAACUGAG-------UUCCAAGUACUGGGUGCCUGGU-GCCU---------------GGUGCUGGGUACUUGGCAC
.(.(((..--------((((((.((((....)))-------))))))).))).)(((((.(((-((((---------------......))))))).))))) ( -32.90)
>DroYak_CAF1 4762 95 + 1
UCGGGUUCCUUGCUUCCUUGGGCGCUGAACUGAGU-----GUUCCAAGUACUUGGUGC-UGGU-UACUGGGUAUUGGGUAUUGGGUGCUGGGUACUUGGCAC
...(((((..((((......))))..)))))..((-----(..(((((((((..(..(-(.(.-((((.(....).)))).).))..)..)))))))))))) ( -36.00)
>consensus
UCGGAUUC________CUUGGGCACUGAACUGAGU_____GUUCCAAGUACUGGGUGC_UGGG__ACU_______________GGUACUGAGUACUUGGCAC
................((..(........)..)).........(((((((((.(((((..........................))))).)))))))))... (-17.37 = -17.37 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 18,359,595 – 18,359,691
Length 96
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 74.82
Mean single sequence MFE -28.57
Consensus MFE -17.12
Energy contribution -17.37
Covariance contribution 0.25
Combinations/Pair 1.10
Mean z-score -1.99
Structure conservation index 0.60
SVM decision value 1.12
SVM RNA-class probability 0.918263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18359595 96 + 22224390
CAGAGUUCGCAGUUCCAAAUACUGGGUGC-UGGGUAACU-GGU-CUGAGUACUGAGUACUGAGUACUUGGCACACACGUUUCACACAUAUUUCAAGCGC
.......(((.((.((((.((((.(((((-(.((((.((-...-...)))))).)))))).)))).)))).))....((.....)).........))). ( -27.60)
>DroSim_CAF1 4720 76 + 1
CUGAGCUCGGAGUUCCAAGUACUGGGUGC-UGGG----------------------UACUGAGUACUUGGCACACACGUUUCACACAUAUUUCAAGCGC
....(((.(((((.(((((((((.(((((-...)----------------------)))).))))))))).))....((.....))....))).))).. ( -25.40)
>DroEre_CAF1 4439 76 + 1
CUGAG-------UUCCAAGUACUGGGUGCCUGGU-GCCU---------------GGUGCUGGGUACUUGGCACACACGUUUCACACAUAUUUCAAGCGC
....(-------(.(((((((((.((..((.(..-..).---------------))..)).))))))))).))...(((((............))))). ( -27.50)
>DroYak_CAF1 4791 92 + 1
CUGAGU-----GUUCCAAGUACUUGGUGC-UGGU-UACUGGGUAUUGGGUAUUGGGUGCUGGGUACUUGGCACACACGUUUCACACAUAUUUCAAGCGC
....((-----((.(((((((((..(..(-(.(.-((((.(....).)))).).))..)..))))))))).)))).(((((............))))). ( -33.80)
>consensus
CUGAGU_____GUUCCAAGUACUGGGUGC_UGGG__ACU_______________GGUACUGAGUACUUGGCACACACGUUUCACACAUAUUUCAAGCGC
...........((.(((((((((.(((((..........................))))).))))))))).))...(((((............))))). (-17.12 = -17.37 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:00 2006