Table 2.
Candidate ARG boxes upstream of arginine metabolism related genes and operons
| Genome | Operon | Position | Score | Site |
| E. coli | argR | -64 | 4.24 | ttTGcATAAAAATTCATc |
| -43 | 3.34 | tATGcAcAAtAATgttgT | ||
| argA | -50 | 3.98 | AcaGAATAAAAATaCAcT | |
| -39 | 3.98 | ttcGAATAAtcATgCAaa | ||
| argCBH | -128 | 4.61 | tATcAATAttcATgCAgT | |
| -109 | 4.61 | tATGAATAAAAATaCAcT | ||
| argD | -68 | 4.01 | AgTGAtTttttATgCATa | |
| -47 | 3.50 | tgTGgtTAtAAtTTCAca | ||
| argE | -64 | 3.80 | AgTGtATttttATTCATa | |
| -43 | 3.39 | AcTGcATgAAtATTgATa | ||
| argF | -65 | 4.16 | AATGAATAAttAcaCATa | |
| -44 | 4.41 | AgTGAATtttAATTCAaT | ||
| argG | -210 | 4.31 | tgTGAATgAAtATcCAgt | |
| -91 | 3.90 | AtTaAATgAAAAcTCATT | ||
| -70 | 4.51 | ttTGcATAAAAATTCAgT | ||
| argI | -63 | 4.33 | AATGAATAAtcATcCATa | |
| -42 | 4.49 | AtTGAATtttAATTCATT | ||
| carAB | -50 | 4.36 | tgTGAATtAAtATgCAaa | |
| -39 | 3.79 | AgTGAgTgAAtaTTCtcT | ||
| artPIQM | -72 | 4.08 | AtTGaATAAttATTCtgT | |
| artJ | -86 | 4.36 | AtTGcATAtAAATTCAcT | |
| H. influenzae | HI1209 | -50 | 4.27 | AgTGAATttttATgCAaT |
| HI0811 | -54 | 4.52 | tATGAATAAAtATgCAca | |
| HI1727 | -64 | 3.87 | AtaGAATttttATTCAca | |
| -43 | 3.75 | AtcGAtTAtttATTCAaT | ||
| HI1180-77 | -50 | 4.01 | tATGcATAAAAATgtAaT | |
| V. cholerae | VC2316 | -15 | 3.82 | AaaGAATAAAAAgTCATT |
| VC2390-89 | -52 | 3.57 | ttTGcAaAAtAATTtATT | |
| VC2508 | -72 | 3.72 | ttaaAATAtttATTCAcT | |
| -51 | 3.35 | AtaGcATtttcATgCtTT | ||
| VC2618 | -120 | 3.83 | AaTaAATgtAAATaCAaT | |
| VC2644-42 | -76 | 3.00 | AacacATAttAAaTCAcT | |
| -55 | 4.00 | AGTGAATAAAAAaaCAaT | ||
| VC2645 | -79 | 3.50 | AtTGttTttttATTCAcT | |
| -58 | 3.27 | AGTGAtTtAAtATgtgTT | ||
| VCA0757-60 | -74 | 3.00 | ttTtggTttttATaCATT | |
| -53 | 3.85 | AtTGcATAAAAATaCgTT | ||
| B. subtilis | argCJBD | -64 | 5.22 | ATtAATTTtTATTCAT |
| carABargF | -55 | 4.54 | AgGcATAaAAATTCAT | |
| -35 | 4.02 | AtaAtTAatTATTCAT | ||
| argGH | -67 | 5.04 | ATGtATTTtTATTaAa | |
| yqjN | -31 | 4.54 | AaGcATTTtTATTCAT | |
| -47 | 4.91 | ATttATTTtTATaCAa | ||
| rocABC | -53 | 5.14 | tTGcATTTtTATTCAT | |
| rocDEF | -63 | 4.76 | tTGcATTTATATaaAg | |
| rocR | -193 | 4.76 | cTttATATAAATgCAa | |
| yqiXYZ | -88 | 4.21 | tTGcATAaAAATgaga | |
| -51 | 4.62 | AcGAATAaATATTCAa | ||
| C. acetobutylicum | 414 | -191 | 5.27 | ATGAATAaATATTCAa |
| 491 | -132 | 4.62 | tTGAATAaATATTCgT | |
| -32 | 5.27 | ATGAATAaAAATTCAa | ||
| 1203-4 | -124 | 5.04 | ATGAATATtTATaaAa | |
| 2787-8 | -63 | 4.79 | tTGAATATtTATaaAg | |
| -43 | 4.59 | gTGtATAatTATTCAT | ||
| 2786-2785 | -118 | 4.59 | ATGAATAatTATaCAc | |
| -98 | 4.79 | cTttATAaATATTCAa | ||
| 3090-89 | -181 | 4.96 | ATGcATAaATATaaAT | |
| -80 | 4.91 | ATGtATAaATATaaAa | ||
| 3533 | -87 | 4.96 | ATGcATAaATATaaAT | |
| -67 | 4.89 | tTGAATAatTATaaAa | ||
| 4268-65 | -194 | 5.09 | ATGcATAaATATTaAT | |
| -69 | 4.62 | gTtAATAatTATTCAT | ||
| T. maritima | TM0371 | -59 | 4.21 | tTtcATATtTATgCta |
| TM0558-57 | -81 | 3.92 | tTtAATTcAAAgTaAa | |
| TM0593-91 | -34 | 4.16 | tTGtgTTatAATaaAT | |
| TM1780-85 | -138 | 3.87 | cgtAATTgATATTCAT | |
| TM1873 | -91 | 4.44 | ATttATTTAAcTTaAT | |
| D. radiodurans | DR0080 | -57 | 4.11 | cTGtATTTcTATaCAg |
| DR0674-78 | -131 | 4.09 | tTGcATAgtcATTCAT | |
| DR2610 | -85 | 3.62 | ATGgATTgAAATcCAg | |
| -62 | 3.69 | cTGgATTTtAAggaAT | ||
| C. pneumoniae | glnPQ | -53 | 4.26 | tTGcATAaATATgatT |
| -32 | 4.64 | ATaAATAaATATgCAT | ||
| artJ | -112 | 3.92 | tTtAATcaAAATTatT | |
| 27 | 3.96 | ATttATTTtTATaatg | ||
| M. tuberculosis | Rv1652-59 | -11 | 3.91 | tTGcATAacgATgCAa |
Position is indicated relative to the start of translation. The score for E.coli and H. influenzae genes was computed using the profile from [27]; other scores were computed using the profile trained on B. subtilis candidate ARG boxes using the procedure from [28]. The sites used to construct the profile are shown in bold.