Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,464,297	A→G	A253A (GCA→GCG)	paaX →	transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,464,297	0	A	G	100.0%	199.8 / NA	56	A253A (GCA→GCG)	paaX	transcriptional repressor of phenylacetic acid degradation paa operon, phenylacetyl‑CoA inducer
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (27/29);  total (27/29)

CGCTGGTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCACACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAACTG  >  NC_000913/1464161‑1464408                                                                                                                                         |                                                                                                                cgcTGGTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGcgca                                                                                                               <  1:1121118/139‑1 (MQ=255)     ggTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTgg                                                                                                           <  2:33430/139‑1 (MQ=255)      gTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTggg                                                                                                          <  1:723288/139‑1 (MQ=255)       tGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCTCTgggc                                                                                                         <  2:272746/139‑1 (MQ=255)       tGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTgggc                                                                                                         <  2:1098995/139‑1 (MQ=255)                  aaaGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACgg                                                                                              <  1:17530/139‑1 (MQ=255)                       ggcggcAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGt                                                                                         >  2:1018165/1‑139 (MQ=255)                         cggcAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCa                                                                                       >  2:598201/1‑139 (MQ=255)                             aGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   <  1:1018165/139‑1 (MQ=255)                             aGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   <  2:1399947/139‑1 (MQ=255)                                      aaCCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAAc                                                                          >  1:1084319/1‑139 (MQ=255)                                         cccGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGc                                                                                     <  1:1055768/125‑1 (MQ=255)                                         cccGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGc                                                                                     >  2:1055768/1‑125 (MQ=255)                                           cGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATAc                                                                                                <  2:1278094/112‑1 (MQ=255)                                           cGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATAc                                                                                                >  1:1278094/1‑112 (MQ=255)                                              aGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCa                                                                  <  1:599953/139‑1 (MQ=255)                                              aGCGGGCA‑TTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAg                                                                 <  1:608101/139‑1 (MQ=255)                                                  ggCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAgcgc                                                              >  1:988959/1‑139 (MQ=255)                                                      tttCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAg                                                          <  1:598201/139‑1 (MQ=255)                                                          atatTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGcc                                                      <  2:988959/139‑1 (MQ=255)                                                             ttCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCctgc                                                   <  2:696572/139‑1 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   >  1:707286/1‑102 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCtg                                                                                   <  2:707286/102‑1 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    >  1:100924/1‑117 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    <  2:100924/117‑1 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCtt                                              <  2:1227168/139‑1 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCtt                                              >  1:871294/1‑139 (MQ=255)                                                                  cTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCtt                                              >  2:1137887/1‑139 (MQ=255)                                                                     ttACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    <  2:808273/114‑1 (MQ=255)                                                                     ttACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTAt                                                                    >  1:808273/1‑114 (MQ=255)                                                                       aCTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcg                                         <  2:1084319/139‑1 (MQ=255)                                                                            tCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgt                                    >  2:673506/1‑139 (MQ=255)                                                                             ccATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTa                                            <  2:1347965/130‑1 (MQ=255)                                                                             ccATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTa                                            >  1:1347965/1‑130 (MQ=255)                                                                                   ttATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGaa                             <  1:1137887/139‑1 (MQ=255)                                                                                          cGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTg                      >  2:713265/1‑139 (MQ=255)                                                                                            tgtCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGaa                    >  2:352368/1‑139 (MQ=255)                                                                                                   cTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   <  1:979000/117‑1 (MQ=255)                                                                                                   cTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   >  2:979000/1‑117 (MQ=255)                                                                                                     tAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCtcggtc           <  2:871294/139‑1 (MQ=255)                                                                                                             cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCtgctgc                                                >  2:604756/1‑94 (MQ=255)                                                                                                             cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCtgctgc                                                <  1:604756/94‑1 (MQ=255)                                                                                                             cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAAct   >  2:1143544/1‑139 (MQ=255)                                                                                                             cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAAct   >  1:1336179/1‑139 (MQ=255)                                                                                                             cATTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAAct   >  1:166818/1‑139 (MQ=255)                                                                                                              aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAgcg                                                        <  2:1386687/85‑1 (MQ=255)                                                                                                              aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAgcg                                                        >  1:1386687/1‑85 (MQ=255)                                                                                                              aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCtc               <  2:651490/126‑1 (MQ=255)                                                                                                              aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCtc               >  1:651490/1‑126 (MQ=255)                                                                                                              aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAActg  >  2:361107/1‑139 (MQ=255)                                                                                                              aTTGTTGCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAActg  >  1:73465/1‑139 (MQ=255)                                                                                                               ttgttgCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAg                                                                                      <  2:506321/54‑1 (MQ=255)                                                                                                               ttgttgCCGGAGGAGTTGCTTCCGGCGCACTGGGCAGGGCATACGGCGCGTCAg                                                                                      >  1:506321/1‑54 (MQ=255)                                                                                                                                   tCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   <  2:1183934/85‑1 (MQ=255)                                                                                                                                   tCCGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGcgttcgtt                                   >  1:1183934/1‑85 (MQ=255)                                                                                                                                     cGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCa                                                                            >  2:230216/1‑42 (MQ=255)                                                                                                                                     cGGCGCACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCa                                                                            <  1:230216/42‑1 (MQ=255)                                                                                                                                         |                                                                                                                CGCTGGTGCCGCTTTTAAAAGAGGCGGCAGACGAGTTAACCCCGGAGCGGGCATTTCATATTCAGCTTTTACTGATCCATTTTTATCGCCGTGTCGTCCTTAAAGACCCATTGTTGCCGGAGGAGTTGCTTCCGGCACACTGGGCAGGGCATACGGCGCGTCAGCTGTGTATCAACATTTATCAGCGCGTAGCGCCTGCTGCTTTAGCGTTCGTTAGTGAAAAAGGTGAAACCTCGGTCGGTGAACTG  >  NC_000913/1464161‑1464408

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑