Table 3.
Distribution of SSR in the Secale cereale ssp. segetale cp genome.
| Type | Repeat unit | Length | Start | End | Location | Region |
|---|---|---|---|---|---|---|
| Mononucleotide | A | 13 | 7211 | 7223 | IGS (psbK–psbJ) | LSC |
| 13 | 7937 | 7949 | IGS (trnS-GCU–psbD) | LSC | ||
| 18 | 11227 | 11244 | IGS (psbC–trnS-UGA) | LSC | ||
| 12 | 29538 | 29549 | rpoC2 | LSC | ||
| 12 | 29945 | 29956 | IGS (rpoC2–rps2) | LSC | ||
| 12 | 33569 | 33580 | intron atpF | LSC | ||
| 12 | 33844 | 33855 | intron atpF | LSC | ||
| 13 | 36192 | 36204 | IGS (trnR-UCU–trnfM-CAU) | LSC | ||
| 12 | 43027 | 43038 | II intron ycf3 | LSC | ||
| 13 | 46728 | 46740 | IGS (trnT-UGU–trnL-UAA) | LSC | ||
| 12 | 76716 | 76727 | IGS (rpl36–infA) | LSC | ||
| 12 | 105202 | 105213 | IGS (ndhF–rpl32) | SSC | ||
| Trinucleotide | AAT | 15 | 24652 | 24666 | rpoC1 | LSC |
| AAT | 13 | 47511 | 47523 | IGS (trnL-UAA–trnF-GAA) | LSC | |
| AAC | 12 | 31552 | 31563 | atpI | LSC | |
| AAT | 12 | 56494 | 56505 | IGS (rbcL–rpl23) | LSC | |
| AAG | 12 | 65670 | 65681 | IGS (psaJ–rpl33) | LSC | |
| Tetranucleotide | AAGG | 12 | 42927 | 42938 | II intron ycf3 | LSC |
| AATG | 12 | 64604 | 64615 | IGS (trnW-CCA–trnP-UGG) | LSC | |
| AAAG | 12 | 64889 | 64900 | IGS (trnP–UGG-psaJ) | LSC | |
| AAAG | 12 | 68899 | 68910 | IGS (clpP–psbB) | LSC | |
| AACG | 13 | 99471 | 99483 | 4.5S rRNA | IR | |
| AAAT | 12 | 108269 | 108280 | ndhD | SSC | |
| AACG | 13 | 118618 | 118630 | 4.5S rRNA | IR | |
| Pentanucleotide | AATAT | 18 | 15656 | 15673 | IGS (trnY-GUA–trnD-GUC) | LSC |
| ACCAT | 15 | 43805 | 43819 | I intron ycf3 | LSC | |
| AATAT | 18 | 47154 | 47171 | intron trnL-UAA | LSC | |
| AATAT | 16 | 101098 | 101113 | IGS (trnN-GUU–rps15) | IR | |
| AATAT | 16 | 116988 | 117003 | IGS (trnN-GUU-rps15) | IR |
IGS IGS (psbK-psbJ) means spacer between psbK and psbJ.