Possible Genes
| Location | Length (bp) | Confirmation | Identity |
| 53756–58912 | 5157 | — | — |
| 49164–52877 | 3714 | — | — |
| 66347–68791 | 2445 | — | — |
| 63168–65339 | 2178 | — | — |
| 83353–85467 | 2115 | database homology | protein phosphatase |
| 4970–2859 | 2112 | — | — |
| 23287–21299 | 1989 | 3′-cDNA sequence | — |
| 75662–77563 | 1902 | — | — |
| 79058–80860 | 1803 | — | — |
| 43293–45047 | 1755 | database homology | G-6-P isomerase |
| 90872–92554 | 1683 | database homology | protein kinase |
| 60672–62312 | 1641 | — | — |
| 45694–47331 | 1638 | — | — |
| 69244–70737 | 1494 | database homology | alanine aminotransferase |
| 27365–28642 | 1278 | database homology/ 3′-cDNA sequence | VIPER element |
| 72919–74148 | 1230 | database homology | alanine aminotransferase |
| 1920–829 | 1092 | — | — |
| 6651–5599 | 1053 | 3′-cDNA sequence | — |
| 88432–89436 | 1005 | — | — |
| 64663–65649 | 987 | — | — |
| 34713–35681 | 969 | database homology | truncated cruzipain |
| 31270–30308 | 963 | — | — |
| 38430–37552 | 879 | —[ii] | —[ii] |
| 38587–39459 | 873 | —[ii] | —[ii] |
| 71994–72782 | 789 | — | — |
| 13865–13101 | 765 | — | — |
| 30998–30258 | 741 | — | — |
| 35453–34731 | 723 | —[iii] | —[iii] |
| 39308–38592 | 717 | —[ii] | —[ii] |
| 7208–6720 | 489 | 3′-cDNA sequence | — |
| 42461–42862 | 402 | database homology | ATP synthase subunit |
[i] Possible genes are ORFs longer than 700 bp or otherwise confirmed.
[ii] Overlaps TRS1.6 repeat element.
[iii] Overlaps truncated cruzipain gene on the other strand.