Locus 1977

Sequence ID 2L_DroMel_CAF1
Location 5,360,211 – 5,360,331
Length 120
Max. P 0.643632
window3195

overview

Window 5

Location 5,360,211 – 5,360,331
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -38.40
Consensus MFE -29.43
Energy contribution -27.88
Covariance contribution -1.55
Combinations/Pair 1.42
Mean z-score -1.80
Structure conservation index 0.77
SVM decision value 0.23
SVM RNA-class probability 0.643632
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5360211 120 + 22407834
CCUAUUCGGUCCCUGGGCCAUCAUCAUUGGGGAUCUGCUGAAGGAUCUGGCUCGGUUUUUGGCCGUCCUGGCCAUCUUUGUGUUUGGCUUUUCCAUGCACAUUGUGGCCCUGAAUCAGAG
.......((((((..(..........)..))))))..(((((((((..((((........)))))))))((((((...(((((.(((.....))).)))))..)))))).....)))).. ( -43.60)
>DroVir_CAF1 40742 120 + 1
UCUGUUCGGACCCUGGGCCAUCAUCAUUGGCGAUCUGCUUAAGGAUCUGGCGAGAUUUCUUGCCGUGCUCGCCAUCUUUGUGUUUGGCUUCUCCAUGCAUAUUGUGGCGUUGAAUCAAUC
...(((((.((.....((((.......))))(((((......))))).((((((....)))))))).).((((((...(((((.(((.....))).)))))..))))))..))))..... ( -38.60)
>DroGri_CAF1 35092 120 + 1
UUUGUUCGGGCCCUGGGCCAUUAUCAUUGGUGAUCUCUUAAAGGAUCUGGCACGCUUUCUGGCCGUCCUCGCCAUCUUUGUGUUUGGCUUUUCCAUGCACAUUGUGGCACUAAAUCAAUC
........((((...))))......(((((((((((......))))).((.(((((....)).)))))..(((((...(((((.(((.....))).)))))..))))).....)))))). ( -33.70)
>DroWil_CAF1 39675 120 + 1
UCUAUUCGGACCUUGGGCCAUUAUCAUUGGUGAUCUGCUAAAGGAUUUGGCUCGCUUUUUGGCAGUGUUGGCUAUAUUUGUGUUUGGCUUUUCCAUGCACAUUGUGGCGCUGAAUCAAUC
...((((((.....((((((..(((.(((((.....)))))..))).))))))(((....))).......((((((..(((((.(((.....))).))))).)))))).))))))..... ( -36.20)
>DroMoj_CAF1 36229 120 + 1
UUUAUUCGGGCCGUGGGCCAUUAUUAUUGGCGAUCUGCUUAAGGAUCUAGCGAGAUUUCUCGCCGUGCUCGCUAUCUUUGUGUUUGGCUUUUCCAUGCAUAUCGUGGCGCUGAAUCAAUC
...((((((((((...((((.......))))(((((......)))))..(((((....))))))).))))(((((...(((((.(((.....))).)))))..)))))...))))..... ( -39.00)
>DroAna_CAF1 23983 120 + 1
CCUCUUCGGACCCUGGGCCAUCAUCAUCGGGGAUCUGCUGAAGGAUUUGGCCAGGUUCUUGGCUGUGUUAGCCAUUUUCGUGUUUGGCUUUUCCAUGCACAUAGUGGCCCUGAAUCAGAG
...((((((.((((((..........)))))).....))))))((((((((((((....((((((...))))))...))((((.(((.....))).))))....)))))..))))).... ( -39.30)
>consensus
UCUAUUCGGACCCUGGGCCAUCAUCAUUGGCGAUCUGCUAAAGGAUCUGGCGAGAUUUCUGGCCGUGCUCGCCAUCUUUGUGUUUGGCUUUUCCAUGCACAUUGUGGCGCUGAAUCAAUC
.......((.(....).)).......((((((((((......)))))(((((........))))).....(((((...(((((.(((.....))).)))))..))))))))))....... (-29.43 = -27.88 +  -1.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:23 2006