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

General features for molecule RFA_00619 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: RFA_00619 Molecule name [?]: Ciliate telomerase RNA, RF00025, U45436.1/201-414 Source [?]: Rfam Database Source ID [?]: RF00025 U45436.1/414-201 Reference [?]: Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R. Eddy and Alex Bateman, Rfam: annotating non-coding RNAs in complete genomes, Nucleic Acids Res. 2005 33:D121-D124. Type [?]: Ciliate Telomerase 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 [?]: 214 Fragments used [?]: N/A Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 136 Number of paired bases [?]: 78

Click on any header below for additional features.

Stem features Number of stems [?]: 9 Number of base pairs in stems [?]: 39 Maximum length of a stem [?]: 8 Average length of a stem [?]: 4.33 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -4.06 Minimum estimated free energy [?]: -10

Hairpin loop features Number of hairpin loops [?]: 3 Maximum number of free bases in hairpin loops [?]: 21 Average number of free bases in hairpin loops [?]: 11.33 Minimum number of free bases in hairpin loop [?]: 6

Bulge loop features Number of bulge loops [?]: 2 Maximum number of free bases in bulge loops [?]: 5 Average number of free bases in bulge loops [?]: 2 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 3 Maximum number of free bases in internal loops: 8 Average number of free bases in internal loops: 3 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 4 Average internal loop absolute asymmetry: 2 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 3 Average internal loop relative asymmetry: 2 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 1 Maximum number of free bases in multi-loops: 37 Average number of free bases in multi-loops: 18 Minimum number of free bases in multi-loop: 7 Maximum multi-loop absolute asymmetry: 30 Average multi-loop absolute asymmetry: 20 Minimum multi-loop absolute asymmetry: 3 Maximum multi-loop relative asymmetry: 5.29 Average multi-loop relative asymmetry: 1.93 Minimum multi-loop relative asymmetry: 0.19 Maximum number of branches in multi-loops: 3 Average number of branches in multi-loops: 3 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 6 Total number of AA non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 5

Pseudoknot features