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

General features for molecule CRW_00525 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: CRW_00525 Molecule name [?]: d.233.e.G.intestinalis Source [?]: Gutell Lab CRW Site Source ID [?]: d.233.e.G.intestinalis 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 [?]: 23S 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 [?]: 2850 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 4 Number of unpaired bases [?]: 1224 Number of paired bases [?]: 1626

Click on any header below for additional features.

Stem features Number of stems [?]: 157 Number of base pairs in stems [?]: 657 Maximum length of a stem [?]: 13 Average length of a stem [?]: 4.19 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -8.34 Minimum estimated free energy [?]: -34.1

Hairpin loop features Number of hairpin loops [?]: 68 Maximum number of free bases in hairpin loops [?]: 28 Average number of free bases in hairpin loops [?]: 5.99 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 32 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 0.66 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 35 Maximum number of free bases in internal loops: 15 Average number of free bases in internal loops: 3.3 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 6 Average internal loop absolute asymmetry: 1.29 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 3 Average internal loop relative asymmetry: 1.51 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 21 Maximum number of free bases in multi-loops: 15 Average number of free bases in multi-loops: 2.74 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 15 Average multi-loop absolute asymmetry: 2.47 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 15 Average multi-loop relative asymmetry: 1.21 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 7 Average number of branches in multi-loops: 3.67 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 30 Total number of AC non-canonical base pairs: 8 Total number of AG non-canonical base pairs: 7 Total number of CC non-canonical base pairs: 7 Total number of CU non-canonical base pairs: 2 Total number of GG non-canonical base pairs: 3 Total number of UU non-canonical base pairs: 3

Pseudoknot features Number of pseudoknots [?]: 5 Number of bands: 24 Number of base pairs in bands: 156 Maximum band length: 32 Average band length: 6.5 Minimum band length: 1 Maximum number of bands per pseudoknot: 14 Average number of bands per pseudoknot: 4.8 Minimum number of bands per pseudoknot: 2 Maximum number of un-bands: 11 Average number of un-bands: 3.4 Minimum number of un-bands: 1 Maximum number of in-bands: 17 Average number of in-bands: 3.4 Minimum number of in-bands: 0 Maximum number of unpaired bases: 251 Average number of unpaired bases: 61.4 Minimum number of unpaired bases: 5 Several ways to remove minimum number of base pairs, per molecule: No Minimum number of base pairs to remove, per molecule: 22 Maximum number of base pairs to remove, per pseudoknot: 13 Average number of base pairs to remove, per pseudoknot: 4.4 Minimum number of base pairs to remove, per pseudoknot: 2 Minimum number of bands to remove, per molecule: 11 Maximum number of bands to remove, per pseudoknot: 5 Average number of bands to remove, per pseudoknot: 2.2 Minimum number of bands to remove, per pseudoknot: 1

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