Locus 1984

Sequence ID 2L_DroMel_CAF1
Location 5,376,650 – 5,376,767
Length 117
Max. P 0.763623
window3203

overview

Window 3

Location 5,376,650 – 5,376,767
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.74
Mean single sequence MFE -27.11
Consensus MFE -19.88
Energy contribution -20.84
Covariance contribution 0.96
Combinations/Pair 1.05
Mean z-score -1.86
Structure conservation index 0.73
SVM decision value 0.51
SVM RNA-class probability 0.763623
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5376650 117 - 22407834
CAAGUGGGCGUAGCUUCAGCUCCAUCUCUGCCUGUAUUCCAACCUCAUUGGCACUGAUUCGUUCAGCUCGCCAAAAGCUAAAUGCCGAAAAA---AAAAAUUCCCACAAAUUGUAAUCUU
...(((((((.((((..(((...(((..((((.................))))..)))..))).))))))))....((.....)).......---.........)))............. ( -24.03)
>DroSec_CAF1 34022 116 - 1
CAAGUGGGCGUAGCUUCAGCUCCAUCUCUGCCUGUAUUCCAACCUCAUUGGCACUGAUUCGUUCGGCUCGCCAAAAGCUAAAUGCCGAAAAA----AAAAUGCCCACAAAUUGUAAUCUU
...(((((((((((....)))..(((..((((.................))))..)))...((((((..((.....)).....))))))...----...))))))))............. ( -30.83)
>DroSim_CAF1 34579 116 - 1
CAAGUGGGCGUAGCUUCAGCUCCAUCUCUGCCUGUAUUCCAACCUCAUUGGCACUGAUUCGUUCGGCUCGCCAAAAGCUAAAUGCCGAAAAA----AAAAUGCCCACAAAUUGUAAUCUU
...(((((((((((....)))..(((..((((.................))))..)))...((((((..((.....)).....))))))...----...))))))))............. ( -30.83)
>DroEre_CAF1 37214 99 - 1
CAAGUGGGCGUAGCUUCAGCUC-----------------CAACCUCAUUGGCACUGAUUCGUUCAGCUCGCCAAAAGCUAAAUGCCGAACAA---AAAAAGGCCCACAAA-UGUAAUCUU
...((((((...(..((((..(-----------------(((.....))))..))))..)((((.((..((.....)).....)).))))..---......))))))...-......... ( -27.10)
>DroAna_CAF1 41141 113 - 1
UCUGUGGGCGUUUCUUGAGCUCCAUCUCU------AUCGCUGCCUCAUUGGCACUGAUUCGUUCAGCUCGCCAAAAGCUUAAA-CCGACAAAAACGAAAAUACCAACAAAUUGUAGACUU
..(((((...((((..(((((........------((((.((((.....)))).))))......)))))((.....)).....-...........))))...)).)))............ ( -22.74)
>consensus
CAAGUGGGCGUAGCUUCAGCUCCAUCUCUGCCUGUAUUCCAACCUCAUUGGCACUGAUUCGUUCAGCUCGCCAAAAGCUAAAUGCCGAAAAA____AAAAUGCCCACAAAUUGUAAUCUU
...(((((((((((....)))..........................(((((.((((.....))))...))))).........................))))))))............. (-19.88 = -20.84 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:31 2006