Table 2 Repeat sequence of the chloroplast genome of “Shanxinyang”

SSR

1

(A)n:63961–63,979,98,244-98,268,73,696-73,721,73,480–73,506;(T)n:92750–92,768,74,999-75,023,49,077-49,105,110,784–110,815

2

(AT)n:149467–149,490,90,969-90,996,55,839–55,888;(TA)n:62786–62,864

3

(AAT)n:74499–74,548;(ATA)n:102256–102,285;(ATT)n:140391–140,419;(CTT)n:1437–1467;(TAA)n:70134–70,169;(TAT)n:54868–54,916,36,241–36,351;(TTT)n:82352–82,389

4

(AAAC)n:74209–74,231;(AATA)n:86940–86,976;(ATTT)n:156029–156,084,42,745–42,828;(TAAA)n:96056–96,078;(TATT)n:17554–17,592,104,656–104,727;(TTAA)n:108558–108,614

5

(AATGG)n:1766–1807;(AATTC)n:55169–55,234;(AATTT)n:2510–2537;(CATAT)n:95486–95,524;(TAACT)n:86305–86,367;(TCCAT)n:137687–137,728;(TCTAA)n:94997–95,064;(TGATA)n:20401–20,454;(TTATT)n:91555–91,597;(TTTAT)n:56856–56,898,99,816–99,902;(TTTTA)n:110753–110,814;(TTTTG)n:90467–90,497

6

(AATATA)n:72201–72,248;(AATCAA)n:31871–31,900;(ACTAAT)n:11422–11,466;(ATAATG)n:93151–93,186;(ATAGAA)n:1684–1723;(ATATAG)n:105068–105,122;(ATATTA)n:97585–97,658;(ATTAAG)n:36305–36,369;(ATTAAT)n:59132–59,174;(TAAGAG)n:27396–27,435;(TATTAG)n:128028–128,072;(TATTTT)n:92995–93,038;(TCTTTC)n:79848–79,887;(TGTTTC)n:813–877;(TTAATA)n:33386–33,431;(TTTATA)n:136950–136,956;(TTTATT)n:127492–127,541;(TTTCTA)n:137771–137,810;(TTTGTT)n:75579–75,618;(TTTTAT)n:84635–84,674;(TTTTGC)n:70652–70,685;(TTTTTG)n:78823–78,863

7

(AATATTA)n:95525–95,537,95,464–95,485;(ATAATAA)n:93187–93,196;(ATTCTAA)n:63445–63,546;(TAATAGG)n:63677–63,711;(TTATTAT)n:27333–27,389;(TTATTTT)n:39270–39,354

8

(TATTTGTA)n:109761–109,843

9

(AATAAATAG)n:58568–58,608

Low_complexity

A-rich

< 30:2538–2557,11,957–12,005;30–80:27674–27,709,44,037-44,073,49,380-49,446,54,158-54,193,57,311-57,358,74,380-74,429,92,835-92,880,93,954-94,030,94,879-94,922,99,929-99,969,112,105-112,161,121,902-121,940,136,957–136,984; > 80:139622–139,711,146,459–146,569

GA-rich

30–40:138027–138,057,139,634–139,678

LTR/Gypsy

Atlantys3_I-int

37: 24992–25,029,114,465–114,502

rRNA

LSU-rRNA_Ath

30–80:3674–3910; > 80:4349–4462,4612-4659,5526-5687,5829-5931,6090–6217

SSU-rRNA_Ath

73:8893–8966,9062–9417; 134:9482–9616,129,878–130,012; 355:130077–130,432,130,528–130,601

LSU-rRNA_Ath

47:133277–133,404; > 80:133563–133,665,133,807-133,968,134,835-134,882,135,032-135,145,135,584–135,820