Table 4.
Analysis of full-length L1s
| (a) Chromosome | Number of L1s with intact ORF proteins* | Average number of codon changes† | Number of L1s with intact ORF proteins/Gb |
| 1 | 8 | 23 | 35 |
| 2 | 7 | 27 | 31 |
| 3 | 7 | 22 | 36 |
| 4 | 6 | 7 | 34 |
| 5 | 2 | 33 | 12 |
| 6 | 5 | 17 | 29 |
| 7 | 3 | 14 | 20 |
| 8 | 3 | 5 | 22 |
| 9 | 1 | 9 | 9 |
| 10 | 5 | 25 | 37 |
| 11 | 8 | 15 | 58 |
| 12 | 6 | 38 | 46 |
| 13 | 1 | 51 | 10 |
| 14 | 2 | 18 | 22 |
| 15 | 2 | 20 | 25 |
| 16 | 1 | 10 | 13 |
| 17 | 0 | NA | 0 |
| 18 | 5 | 21 | 63 |
| 19 | 0 | NA | 0 |
| 20 | 2 | 20 | 33 |
| 21 | 0 | NA | 0 |
| 22 | 1 | 10 | 29 |
| X | 9 | 28 | 64 |
| Y | 1 | 19 | 44 |
| Un | 0 | NA | NA |
| Total: | 85 | 21 | |
| (b)‡ | |||
| Occurrences in this set | |||
| ORF1 | |||
| Codon 168, V → G | 24% | ||
| Codon 251, V → A | 93% | ||
| ORF2 | |||
| Codon 485, M → K | 87% | ||
| Codon 755, G → S | 47% | ||
| Codon 760, V → T | 96% | ||
| Codon 970, K → R | 66% | ||
| Codon 1006, D → A | 62% | ||
| Codon 1182, N → K | 48% | ||
| Codon 1183, E → D | 69% | ||
| Codon 1241, I → M | 46% | ||
*All full-length L1s with intact ORFs, with and without TSDs, were collected. Full-length was defined as ≤ 30 nucleotides deleted from the 3' end and ≤ 10 nucleotides deleted from the 5' end. † The predicted protein translation from the L1.3 sequence was used as a reference. ‡Some codons were more likely to be diverged from the L1.3 reference than others. These codons, their changes, and the frequency with which they were found in our set are shown.