Table 3. Human papillomavirus sequences assembly and assignment in each sample.
| Sample | 100066 | 100067 | 100069 | 100070 | 100072 | 100073 | ||||||||||||||||
| HPVs family | β-HPV | γ-HPV | uc# | β-HPV | γ-HPV | uc | β-HPV | γ-HPV | uc | β-HPV | γ-HPV | uc | β-HPV | γ-HPV | uc | β-HPV | γ-HPV | uc | ||||
| N. total Contigs | 170 | 68 | 81 | 76 | 32 | 12 | 37 | 9 | 15 | 97 | 32 | 20 | 25 | 18 | 26 | 5 | 2 | 2 | ||||
| N. Contigs >500nt | 48 | 3 | 14 | 23 | 6 | 1 | 14 | 4 | 3 | 26 | 18 | 4 | 5 | 6 | 1 | 4 | 2 | 2 | ||||
| N. Contigs >500nt with partial L1 gene | 21 | 0 | 6 | 13 | 6 | 1 | 10 | 4 | 0 | 11 | 11 | 3 | 3 | 5 | 0 | 4 | 2 | 2 | ||||
| N. Contigs >500nt with whole L1 cds | 17 | 0 | 0 | 9 | 3 | 1 | 6 | 4 | 0 | 7 | 6 | 0 | 3 | 3 | 0 | 4 | 2 | 2 | ||||
| Assignment similarity (based on L1 cds) | ||||||||||||||||||||||
| <70% ≥70% <90% >90% | 0 | 0 | 0 | 0 | 3 | 0 | 0 | 2 | 0 | 0 | 2 | 0 | 0 | 2 | 0 | 0 | 1 | 0 | ||||
| 4 | 0 | 0 | 2 | 0 | 1 | 3 | 2 | 0 | 1 | 4 | 0 | 0 | 1 | 0 | 1 | 1 | 2 | |||||
| 13 | 0 | 0 | 7 | 0 | 0 | 3 | 0 | 0 | 6 | 0 | 0 | 3 | 0 | 0 | 3 | 0 | 0 | |||||
| HPV closest relative (% similarity) | HPV110 (99%) | HPV110 (100%) | HPV 65 (67%) * | HPV148 (82%) | HPV80 (83%) | HPV133 (72%) | HPV12 (99%) | HPV60 (67%) * | HPV14D (99%) | HPV65 (66%) | HPV38b (99%) | HPV127 (65%) * | HPV148 (79%)* | |||||||||
| SIBX-3a (98%) | HPV113 (81%) | HPV112 (62%) * | HPV110 (100%) | HPV133 (65%) | HPV38b (99%) | HPV121 (65%) | HPV5 (99%) | HPV65 (65%) * | HPV80 (99%) | HPV48 (80%) | HPV148 (71%)* | |||||||||||
| SIBX-3a (87%) | HPV150 (99%) | HPV129 (66%) * | HPV12 (99%) | HPV127 (86%) | HPV75 (99%) | HPV4 (72%) | HPV93 (94%) | HPV116 (70%) * | HPV93 (94%) | |||||||||||||
| HPV21 (99%) | HPV38b (99%) | HPV150 (81%) | HPV112 (63%) | HPV110 (100%) | HPV131 (75%) | HPV124 (78%) | ||||||||||||||||
| HPV36 (99%) | HPV76 (99%) | HPV20 (99%) | HPV80 (86%) | HPV109 (75%) | ||||||||||||||||||
| HPV5 (99%) | HPV9 (99%) | HPV120 (85%) | HPV8 (99%) | HPV48 (70%) | ||||||||||||||||||
| HPV20 (98%) | HPV96 (85%) | HPV115 (99%) | ||||||||||||||||||||
| HPV22 (99%) | HPV12 (99%) | |||||||||||||||||||||
| HPV37 (99%) | SIBX-3a (99%) | |||||||||||||||||||||
| HPV14D (99%) | ||||||||||||||||||||||
| HPV122 (76%) | ||||||||||||||||||||||
| HPV124 (99%) | ||||||||||||||||||||||
| HPV124 (81%) | ||||||||||||||||||||||
| FA75 (99%) | ||||||||||||||||||||||
| HPV24 (97%) | ||||||||||||||||||||||
| HPV98 (99%) | ||||||||||||||||||||||
| HPV118 (76%) | ||||||||||||||||||||||
# uc denotes unclassified HPVs.
*
Whole genome sequences confirmed through Sanger sequencing and submitted into Genbank.
New HPV sequences appear in bold and sequences labeled with * are those related to complete genome submitted into Genbank with the JF966371 to JF966379 respective accession numbers (correspondences are displayed in table 4).