ASCIITree sequence format

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Description

ASCIITree is a sequence format that shows Bio::SeqFeatureI objects in such a way that the hierarchy is visible as a tree structure.

See the Feature-Annotation HOWTO for more information.

This file format can be parsed by the Bio::SeqIO system using the Bio::SeqIO::asciitree module.

Example

Seq: AE003644
 source                                           1..263309[+] 
 gene                                             20111..23268[+] 
 mRNA CG4491-RA                                   20111..23268[+] ; SPLIT: 20111..20584[+]  20887..23268[+] 
 CDS CG4491-PA                                    20495..22410[+] ; SPLIT: 20495..20584[+]  20887..22410[+] 
 gene                                             25127..25198[+] 
 tRNA tRNA-Pro                                    25127..25198[+] 
 gene                                             47340..47390[+] 
 tRNA tRNA-Gly                                    47340..47390[+] 
 gene                                             47556..47626[-] 
 tRNA tRNA-Gly                                    47556..47626[-] 
 gene                                             47870..47940[-] 
 tRNA tRNA-Gly                                    47870..47940[-] 
 gene                                             59795..59865[-] 
 tRNA tRNA-Gly                                    59795..59865[-] 
 gene                                             60103..60173[-] 
 tRNA tRNA-Gly                                    60103..60173[-] 
 gene                                             76884..78324[-] 
 mRNA CG4218-RA                                   76884..78324[-] ; SPLIT: 76884..77044[-]  77116..77503[-]  77900..78324[-] 
 CDS CG4218-PA                                    76890..78202[-] ; SPLIT: 76890..77044[-]  77116..77503[-]  77900..78202[-] 
 gene                                             92321..92975[-] 
 mRNA CG3473-RA                                   92321..92975[-] 
 CDS CG3473-PA                                    92373..92828[-] 
 gene                                             128108..128179[+] 
 tRNA tRNA-Pro                                    128108..128179[+] 
 gene                                             128645..128716[-] 
 tRNA tRNA-Pro                                    128645..128716[-] 
 gene                                             128923..128994[+] 
 tRNA tRNA-Pro                                    128923..128994[+] 
 gene                                             129025..218563[-] 
 mRNA CG3479-RA                                   129025..218563[-] ; SPLIT: 129025..130124[-]  130381..130729[-]  130936..131047[-]  131100..131249[-]  131362..131501[-]  131576..131710[-]  131840..134493[-]  139933..140509[-]  141100..141165[-]  165331..165399[-]  217718..218563[-] 
 CDS CG3479-PA                                    129928..217930[-] ; SPLIT: 129928..130124[-]  130381..130729[-]  130936..131047[-]  131100..131249[-]  131362..131501[-]  131576..131710[-]  131840..134493[-]  139933..140509[-]  141100..141165[-]  165331..165399[-]  217718..217930[-] 
 gene                                             144804..148151[+] 
 mRNA CG32954-RA                                  144804..148151[+] ; SPLIT: 144804..144892[+]  145552..145686[+]  145752..146156[+]  146227..146892[+]  147319..147723[+]  147775..148151[+] 
 mRNA CG32954-RC                                  144804..148151[+] ; SPLIT: 144804..144892[+]  145552..145686[+]  145752..146156[+]  146227..146892[+]  147319..147723[+]  147775..148151[+] 
 mRNA CG32954-RH                                  144804..146668[+] ; SPLIT: 144804..145686[+]  145752..146156[+]  146227..146668[+] 
 mRNA CG32954-RG                                  144804..146668[+] ; SPLIT: 144804..144892[+]  145378..145686[+]  145752..146156[+]  146227..146668[+] 
 mRNA CG32954-RB                                  144804..146668[+] ; SPLIT: 144804..144892[+]  145552..145686[+]  145752..146156[+]  146227..146668[+] 
 mRNA CG32954-RD                                  145518..148151[+] ; SPLIT: 145518..145686[+]  145752..146156[+]  146227..146892[+]  147319..147723[+]  147775..148151[+] 
 mRNA CG32954-RE                                  145518..148151[+] ; SPLIT: 145518..145686[+]  145752..146156[+]  146227..146892[+]  147319..147723[+]  147775..148151[+] 
 mRNA CG32954-RF                                  145518..146668[+] ; SPLIT: 145518..145686[+]  145752..146156[+]  146227..146668[+] 
 CDS CG32954-PA                                   145588..146493[+] ; SPLIT: 145588..145686[+]  145752..146156[+]  146227..146493[+] 
 CDS CG32954-PB                                   145588..146493[+] ; SPLIT: 145588..145686[+]  145752..146156[+]  146227..146493[+] 
 CDS CG32954-PD                                   145588..146493[+] ; SPLIT: 145588..145686[+]  145752..146156[+]  146227..146493[+] 
 CDS CG32954-PF                                   145588..146493[+] ; SPLIT: 145588..145686[+]  145752..146156[+]  146227..146493[+] 
 CDS CG32954-PG                                   145588..146493[+] ; SPLIT: 145588..145686[+]  145752..146156[+]  146227..146493[+] 
 CDS CG32954-PH                                   145588..146493[+] ; SPLIT: 145588..145686[+]  145752..146156[+]  146227..146493[+] 
 CDS CG32954-PC                                   146797..148092[+] ; SPLIT: 146797..146892[+]  147319..147723[+]  147775..148092[+] 
 CDS CG32954-PE                                   146797..148092[+] ; SPLIT: 146797..146892[+]  147319..147723[+]  147775..148092[+] 
 gene                                             148188..148550[-] 
 repeat_region                                    148188..148550[-] 
 gene                                             171878..180982[-] 
 repeat_region                                    171878..180982[-] 
 gene                                             241917..242519[+] 
 mRNA CG15282-RA                                  241917..242519[+] ; SPLIT: 241917..242005[+]  242077..242519[+] 
 CDS CG15282-PA                                   241994..242304[+] ; SPLIT: 241994..242005[+]  242077..242304[+] 
 gene                                             254058..258098[-] 
 mRNA CG12636-RA                                  254058..258098[-] ; SPLIT: 254058..254071[-]  254173..255772[-]  255972..257281[-]  257807..257914[-]  258002..258098[-] 
 CDS CG12636-PA                                   254058..258098[-] ; SPLIT: 254058..254071[-]  254173..255772[-]  255972..257281[-]  257807..257914[-]  258002..258098[-]
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