Submission Results

Sequence Name: Not Available

GenBank Accession Number: UGLR00000000.1 open_in_new

GenInfo (GI) Number: 0000000000 open_in_new

Download Results: UGLR00000000.1.PHASTER.zip

gi|00000000|ref|UGLR00000000.1| Klebsiella pneumoniae strain NCTC9662, whole genome shotgun 5743928, gc%: 56.61%

Download summary as .txt file: summary.txt file_download

Total: 19 prophage regions have been identified, of which 12 regions are intact, 6 regions are incomplete, and 1 regions are questionable.

RegionRegion LengthCompletenessScore# Total ProteinsRegion PositionMost Common PhageGC %Details
133.3Kbintact1305137918-71285 info_outlinePHAGE_Cronob_ENT47670_NC_019927(16)53.06%Show info_outline
212.7Kbincomplete5016472594-485323 info_outlinePHAGE_Salmon_Fels_2_NC_010463(6)49.96%Show info_outline
38.4Kbincomplete4011869534-877937 info_outlinePHAGE_Pseudo_vB_PaeS_PAO1_Ab30_NC_026601(1)46.13%Show info_outline
424.9Kbincomplete5027944585-969542 info_outlinePHAGE_Salmon_Fels_1_NC_010391(10)53.31%Show info_outline
525.4Kbintact150471577122-1602531 info_outlinePHAGE_Entero_mEp234_NC_019715(7)50.83%Show info_outline
636.1Kbintact150501759803-1795954 info_outlinePHAGE_Vibrio_12B12_NC_021070(28)55.81%Show info_outline
711.3Kbincomplete60111827998-1839327 info_outlinePHAGE_Escher_D108_NC_013594(3)54.31%Show info_outline
862Kbintact120611903536-1965577 info_outlinePHAGE_Cronob_ENT47670_NC_019927(14)54.39%Show info_outline
949.7Kbintact140792883224-2933015 info_outlinePHAGE_Edward_GF_2_NC_026611(17)51.75%Show info_outline
1019.5Kbintact150184411592-4431154 info_outlinePHAGE_Entero_mEp460_NC_019716(16)54.32%Show info_outline
1148Kbintact150564482400-4530487 info_outlinePHAGE_Escher_HK639_NC_016158(8)51.89%Show info_outline
1259.4Kbintact110614596985-4656406 info_outlinePHAGE_Escher_phiV10_NC_007804(31)53.86%Show info_outline
1325.7Kbquestionable70294739395-4765147 info_outlinePHAGE_Salmon_64795_sal3_NC_031918(8)51.71%Show info_outline
1436.7Kbintact150535127646-5164427 info_outlinePHAGE_Mannhe_vB_MhM_3927AP2_NC_028766(16)53.91%Show info_outline
1510.5Kbincomplete50125204454-5215007 info_outlinePHAGE_Entero_P88_NC_026014(3)45.94%Show info_outline
1647.6Kbintact130665213535-5261188 info_outlinePHAGE_Entero_BP_4795_NC_004813(9)53.77%Show info_outline
1743.7Kbintact140295355291-5398997 info_outlinePHAGE_Shigel_Sf6_NC_005344(2)51.01%Show info_outline
1810.3Kbincomplete6085410274-5420634 info_outlinePHAGE_Stx2_c_1717_NC_011357(2)50.14%Show info_outline
1948.6Kbintact140365659904-5708524 info_outlinePHAGE_Entero_P1_NC_005856(5)49.55%Show info_outline
Intact (score > 90)
Questionable (score 70-90)
Incomplete (score < 70)
Region: The number assigned to the region.
Region Length: The length of the sequence of that region (in bp).
Completeness: A prediction of whether the region contains a intact or incomplete prophage based on the above criteria.
Score: The score of the region based on the above criteria.
# Total Proteins: The number of ORFs present in the region.
Region Position: The start and end positions of the region on the bacterial chromosome.
Most Common Phage: The phage(s) with the highest number of proteins most similar to those in the region.
GC %: The percentage of GC nucleotides of the region.

Criteria for scoring prophage regions (as intact, questionable, or incomplete):
Method 1:

  1. If the number of certain phage organism in this table is more than or equal to 100% of the total number of CDS of the region, the region is marked with total score 150. If less than 100%, method 2 and 3 will be used.
Method 2:
  1. If the number of certain phage organism in this table is more than 50% of the total number of CDS of the region, that phage organism is considered as the major potential phage for that region; the percentage of the total number of that phage organism in this table in the total number of proteins of the region is calculated and then multipled by 100; the percentage of the length of that phage organism in this table in the length of the region is calculated and then multipled by 50 (phage head's encapsulation capability is considered).
Method 3:
  1. If any of the specific phage-related keywords (such as 'capsid', 'head', 'integrase', 'plate', 'tail', 'fiber', 'coat', 'transposase', 'portal', 'terminase', 'protease' or 'lysin') are present, the score will be increased by 10 for each keyword found.
  2. If the size of the region is greater than 30 Kb, the score will be increased by 10.
  3. If there are at least 40 proteins in the region, the score will be increased by 10.
  4. If all of the phage-related proteins and hypothetical proteins constitute more than 70% of the total number of proteins in the region, the score will be increased by 10.
Compared the total score of method 2 with the total score of method 3, the bigger one is chosen as the total score of the region.
If the region's total score is less than 70, it is marked as incomplete; if between 70 to 90, it is marked as questionable; if greater than 90, it is marked as intact.