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. 2014 Apr 22;9(4):e95349. doi: 10.1371/journal.pone.0095349

Table 1. Comparison of sequence annotation for five CJIE4 prophages.

RM1221 Presence (+) or absence (-) in isolate or prophage
homolog Gene/protein description 00-2425 00-6200 01-1512 00-1597 00-0949
CJE1418 intA, phage integrase, site-specific recombinase + + + + +
CJE1419 DNA binding protein, transcriptional regulator (excisionase) + + + + +
CJE1420 hypothetical protein + + + + +
ORF1 RHA family protein; antirepressor? - - + - +
ORF4 hypothetical protein - - + - +
CJE1421 dpnA, site-specific DNA methyl-transferase + + + + +
CJE1422 Emm-like protein + + + + +
CJE1423 hypothetical protein + + + + +
CJE1424 hypothetical protein + + + + +
CJE1425 hypothetical protein + + + + +
CJE1426 hypothetical protein + + + + +
CJE1427 hypothetical protein + + + + +
CJE1428 hypothetical protein + + + + +
CJE1429 hypothetical protein, transcriptional regulator domain + + + + +
CJE1430 RloG protein + + + + +
CJE1431 hypothetical protein + + + + +
CJE1432 hypothetical protein + + + + +
CJE1433 hypothetical protein + + + + +
CJE1434 YopX protein + + + + +
CJE1435 DNA binding protein Roi, antirepressor domain + + + + +
CJE1436 hypothetical protein + + + + +
CJE1437 hypothetical protein, 77 aa, opposite strand to CJE1438 + + + + +
CJE1438 hypothetical protein, 67 aa, opposite strand to CJE1437 + + + + +
ORF6 bacteriophage CI repressor protein - - - + +
ORF7 hypothetical protein - - - + +
ORF8 Exonuclease, DNA polymerase III epsilon subunit - - - + +
ORF9 hypothetical protein - - - + +
ORF10 KAP family P-loop protein - - - + +
CJE1439 hypothetical protein + + + - -
CJE1440 signal peptidase I, phage repressor protein + + + - -
CJE1441 DNA/RNA non-specific endonuclease, nucA + + + - -
CJE1442 hypothetical protein, PLDc_N superfamily domain + + + - -
CJE1443 hypothetical protein, homolog of CJE0599 + + + + +
CJE1444 hypothetical protein, homolog of CJE0598 + + + + +
CJE1445 hypothetical protein, homolog of CJE0597 + + + + +
CJE1446 hypothetical protein, homolog of CJE0596 + + + + +
CJE1447 hypothetical protein, homolog of CJE0595 + + + + +
CJE1448 hypothetical protein, homolog of CJE0229 and CJE0594 + + + + +
CJE1449 hypothetical protein, homolog of CJE0593 + + - - +
ORF12 hypothetical protein - - + + -
CJE1450 hypothetical protein, homolog of CJE0230 and CJE0592 + + + + +
CJE1451 hypothetical protein, homolog of CJE0591 + + + + +
CJE1452 hypothetical protein, homolog of CJE0590 + + + + +
CJE1453 hypothetical protein + + + + +
CJE1454 phage head-tail joining protein + + + + +
CJE1455 hypothetical protein + + + + +
CJE1456 hypothetical protein, 90 aa, opposite strand to CJE1457 + + + + +
CJE1457 hypothetical protein, 83 aa, opposite strand to CJE1456 + + + + +
CJE1458 HK 97 family major capsid protein + + + + +
CJE1459 HK97 phage prohead protease + + + + +
CJE1460 hypothetical protein + + + + +
CJE1461 tail tape-measure protein + + + + +
CJE1462 hypothetical protein + + + + +
CJE1463 hypothetical protein + + + + +
CJE1464 hypothetical protein + + + + +
CJE1465 DNA repair protein rad2 + + + + +
CJE1466 hypothetical protein + + + + +
ORF13 hypothetical protein + + - - -
ORF14 addiction module toxin, RelE/StbE family + + - - -
CJE1467 hypothetical protein + + + + +
CJE1468 HK 97 phage protein + + + + +
CJE1469 HK 97 portal protein + + + + +
CJE1470 toxin-antitoxin protein, toxin MazF + + + + +
CJE1471 phage terminase, large subunit + + + + +
CJE1472 phage terminase, small subunit + + + + +
CJE1473 phage HNH endonuclease + + + + +
CJE1474 hypothetical protein + + + + +