ASCIITree sequence format
From BioPerl
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[-]
