RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

General features for molecule CRW_00603 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: CRW_00603 Molecule name [?]: a.16.m.T.brucei Source [?]: Gutell Lab CRW Site Source ID [?]: a.16.m.T.brucei Reference [?]: http://www.rna.ccbb.utexas.edu; Cannone J.J., Subramanian S., Schnare M.N., Collett J.R., D Souza L.M., Du Y., Feng B., Lin N., Madabusi L.V., Muller K.M., Pande N., Shang Z., Yu N., and Gutell R.R. (2002). The Comparative RNA Web (CRW) Site: An Online Database of Comparative Sequence and Structure Information for Ribosomal, Intron, and other RNAs. BioMed Central Bioinformatics, 3:2. [Correction: BioMed Central Bioinformatics. 3:15.] Type [?]: 16S Ribosomal RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: N/A Validated by NMR or X-Ray [?]: No Method for secondary structure determination [?]: Comparative sequence analysis Number of molecules [?]: 1 Length [?]: 621 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 6 Number of unpaired bases [?]: 485 Number of paired bases [?]: 136

Click on any header below for additional features.

Stem features Number of stems [?]: 15 Number of base pairs in stems [?]: 68 Maximum length of a stem [?]: 9 Average length of a stem [?]: 4.53 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -3.81 Minimum estimated free energy [?]: -8.6

Hairpin loop features Number of hairpin loops [?]: 6 Maximum number of free bases in hairpin loops [?]: 37 Average number of free bases in hairpin loops [?]: 13 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 5 Maximum number of free bases in bulge loops [?]: 5 Average number of free bases in bulge loops [?]: 1.1 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 4 Maximum number of free bases in internal loops: 184 Average number of free bases in internal loops: 25 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 182 Average internal loop absolute asymmetry: 46 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 92 Average internal loop relative asymmetry: 24 Minimum internal loop relative asymmetry: 1

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 9 Total number of AA non-canonical base pairs: 2 Total number of AG non-canonical base pairs: 2 Total number of CU non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 4

Pseudoknot features