Locus 7827

Sequence ID X_DroMel_CAF1
Location 19,489,825 – 19,489,932
Length 107
Max. P 0.661421
window12839

overview

Window 9

Location 19,489,825 – 19,489,932
Length 107
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 77.63
Mean single sequence MFE -39.10
Consensus MFE -24.77
Energy contribution -25.36
Covariance contribution 0.59
Combinations/Pair 1.29
Mean z-score -1.41
Structure conservation index 0.63
SVM decision value 0.27
SVM RNA-class probability 0.661421
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19489825 107 + 22224390
UUCAGCUGCCAGCUGGUCAAACAGAACGCCAGCGGCCAAUUGGGCGGCAUCUUUCAGAGUUCUGCCGUCAGUGCCCACUGGGCAACGCAAUGCGA---GUCCCCUCCAAA
....((.(((.((((((..........)))))))))..(((((((((((.(((...)))...)))))))..(((((...)))))...))))))((---(....))).... ( -35.80)
>DroVir_CAF1 3451 99 + 1
UUUAGCUGCCAGCUGGCCAAGCAGAACGCCAACGGCCAGCUGGGCAACAUCUUUCAGAGCUCCGCCCUGAGCGCCCAUUGGGCCACACGCUAUGCC-----------AAC
..((((((((((((((((..((.....))....)))))))).))))............((((......))))((((...)))).....))))....-----------... ( -37.70)
>DroEre_CAF1 3451 107 + 1
UUCAGCUGCCAGCUAGUCAAACAGAACGCCAGCGGCCAGUUGGGCGGCAUCUUUCAGAGUUCCGCCGUCAGUGCCCACUGGGCAACGCACUGCGA---GUCGCCUCCAAA
..((((((((.(((.((..........)).))))).))))))((((((.((.....))....(((.(((..(((((...)))))..).)).))).---))))))...... ( -36.40)
>DroYak_CAF1 3441 107 + 1
UUCAGCUGCCAGCUGGUCAAACAGAACGCCAGCGGUCAGCUGGGCGGCAUCUUUCAGAGUUCCGCCGUCAGUGCCCACUGGGCAACACACUGCCA---GUCGCCGCCAAA
..((((((((.((((((..........)))))))).))))))((((((..((..(((.((...(((..((((....)))))))...)).)))..)---)..))))))... ( -48.60)
>DroMoj_CAF1 3503 99 + 1
UUCAGCUGUCAGCUGGCCAAGCAGCACGCCACCGGUCAGAUGGCCGACAUCUUUCAGAGCUCCGCUCUGAGCGCCCACUGGGCGACGCGCUACCCC-----------AAC
...(((((((.((((......))))..((...(((((....))))).......(((((((...)))))))))((((...)))))))).))).....-----------... ( -37.50)
>DroAna_CAF1 3321 110 + 1
UUUAGCUGUCAGCUCGUCAAGCAGAACGCCAGCGGCGAGGUGGGCGGCAUCUUCCAGAGCUCGGCCCUCAGCGCCCACUGGGCUACGCGUUACGACGACUUGGCUUCCGG
.......(((((.(((((......(((((..(..((..((((((((((.((.....)))))..((.....)))))))))..))..))))))..))))).)))))...... ( -38.60)
>consensus
UUCAGCUGCCAGCUGGUCAAACAGAACGCCAGCGGCCAGCUGGGCGGCAUCUUUCAGAGCUCCGCCCUCAGCGCCCACUGGGCAACGCACUACGA___GUCGCCUCCAAA
....((((.(((((((((...............)))))))))(((((..((.....))...)))))..))))((((...))))........................... (-24.77 = -25.36 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:29 2006