Additional file 1. Gene coding and functional categories. The gene rps12 was coded as 55 and 74 in the cases when the first exon and the second exon are separated by other genes. Gene Code Functional Category atpA 9 ATP synthase atpB 39 ATP synthase atpE 38 ATP synthase atpF 10 ATP synthase atpF 11 ATP synthase atpH 12 ATP synthase atpI 13 ATP synthase petA 43 electron transport petB 61 electron transport petD 62 electron transport petG 49 electron transport petL 48 electron transport ccsA 85 Other cemA 42 Other clpP 56 Other rbcL 40 Other ycf1 82 Other psaA 31 photosystem I and photosystem II psaB 30 photosystem I and photosystem II psaC 86 photosystem I and photosystem II psaJ 52 photosystem I and photosystem II psbA 2 photosystem I and photosystem II psbB 57 photosystem I and photosystem II psbC 24 photosystem I and photosystem II psbD 23 photosystem I and photosystem II psbE 47 photosystem I and photosystem II psbF 46 photosystem I and photosystem II psbH 60 photosystem I and photosystem II psbI 6 photosystem I and photosystem II psbJ 44 photosystem I and photosystem II psbK 5 photosystem I and photosystem II psbL 45 photosystem I and photosystem II psbM 19 photosystem I and photosystem II psbN 59 photosystem I and photosystem II psbT 58 photosystem I and photosystem II psbZ 26 photosystem I and photosystem II ycf4 41 photosystem I and photosystem II rpl14 67 transcription/translation rpl16 68 transcription/translation rpl2 71 transcription/translation rpl20 54 transcription/translation rpl23 72 transcription/translation rpl32 83 transcription/translation rpl36 65 transcription/translation rpoA 63 transcription/translation rpoB 17 transcription/translation rpoC1 16 transcription/translation rpoC2 15 transcription/translation rps11 64 transcription/translation rps12 55 transcription/translation "rps12, exon2" 74 transcription/translation rps14 29 transcription/translation rps18 53 transcription/translation rps19 70 transcription/translation rps2 14 transcription/translation rps3 69 transcription/translation rps4 32 transcription/translation rps7 73 transcription/translation rps8 66 transcription/translation rrn16 75 transcription/translation rrn23 78 transcription/translation rrn5 79 transcription/translation trnA-UGC 77 transcription/translation trnC-GCA 18 transcription/translation trnD-GUC 20 transcription/translation trnE-UUC 22 transcription/translation trnF-GAA 35 transcription/translation trnfM 28 transcription/translation trnG-GCC 27 transcription/translation trnH-GUG 1 transcription/translation trnI-GAU 76 transcription/translation trnK-UUU 3 transcription/translation trnL-UAA 34 transcription/translation trnL-UAG 84 transcription/translation trnM-CAT 37 transcription/translation trnN-GUU 81 transcription/translation trnP-UGG 51 transcription/translation trnQ-UUG 4 transcription/translation trnR-ACG 80 transcription/translation trnR-UCU 8 transcription/translation trnS-GCU 7 transcription/translation trnS-UGA 25 transcription/translation trnT-UGU 33 transcription/translation trnV-UAC 36 transcription/translation trnW-CCA 50 transcription/translation trnY-GUA 21 transcription/translation