gi|194270317|ref|ABSH00000000| Octadecabacter antarcticus 307 whole genome .4891999, GC%: 54.62%, length = 4891999 bps

Total : 11 prophage regions have been identified, of which 7 regions are intact, 2 regions are incomplete, 2 regions are questionable.
REGIONREGION_LENGTHCOMPLETENESSSCORE#CDSREGION_POSITIONPOSSIBLE PHAGEGC_PERCENTAGEDETAIL
1 44.9Kb intact 150 29 620807-665775 Prophage Escherichia coli CFT073 52.33% Detail
2 24.6Kb intact 100 19 1955740-1980407 PHAGE_Equine_virus 53.23% Detail
3 16.9Kb intact 150 28 2045189-2062155 Prophage Xanthomonas axonopodis pv. citri str. 306 54.14% Detail
4 17.7Kb intact 100 20 2186670-2204464 PHAGE_Tetras_SI1 57.29% Detail
5 12.6Kb intact 130 21 2306136-2318772 Prophage Xanthomonas campestris pv. campestris str. ATCC 33913 55.10% Detail
6 9.8Kb questionable 80 14 2776592-2786391 Enterobacteria phage HK022 54.20% Detail
7 5.2Kb intact 100 14 2931865-2937071 Prophage Shewanella oneidensis MR-1 53.14% Detail
8 15Kb intact 150 31 2984145-2999154 Prophage Xanthomonas campestris pv. campestris str. ATCC 33913 52.64% Detail
9 7Kb incomplete 50 11 3083350-3090436 PHAGE_Equine_virus 51.04% Detail
10 7.7Kb incomplete 50 10 3231767-3239548 Lactobacillus prophage Lj771 55.94% Detail
11 9.5Kb questionable 90 17 3323850-3333383 PHAGE_Equine_virus 52.74% Detail
Legend:
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
#CDS: the number of coding sequnce
REGION_POSITION: the start and end positions of the region on the bacterial chromosome
PHAGE: the phage with the highest number of proteins most similar to those in the region
GC_PERCENTAGE: the percentage of gc nucleotides of the region
DETAIL: detail info of the region


txt file for download


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.