Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,696,452	(A)5→4	intergenic (‑381/+10)	uidA ← / ← uidR	beta‑D‑glucuronidase/transcriptional repressor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,696,448	0	A	.	100.0%	236.5 / NA	58	intergenic (‑377/+14)	uidA/uidR	beta‑D‑glucuronidase/transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (30/28);  total (30/28)

TATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTA  >  NC_000913/1696312‑1696580                                                                                                                                         |                                                                                                                                     tATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaa                                                                                                                                    >  1:1614398/1‑139 (MQ=255)      ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  2:1605424/139‑5 (MQ=255)      ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  2:1560512/139‑5 (MQ=255)        aaCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAagagaga                                                                                                                            >  1:19333/1‑139 (MQ=255)             tAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATc                                                                                                                       <  1:44828/139‑1 (MQ=255)                   ctcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATg                                                                                                                 <  2:1110434/139‑1 (MQ=255)                    tcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGc                                                                                                                <  2:1508793/139‑1 (MQ=255)                     cATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGAt                                                                                                                  <  2:398653/136‑1 (MQ=255)                     cATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGAt                                                                                                                  >  1:398653/1‑136 (MQ=255)                       tGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  2:930553/122‑5 (MQ=255)                       tGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               >  1:930553/1‑118 (MQ=255)                        gACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGtt                                                                                                            <  1:1141746/139‑1 (MQ=255)                                    cAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               >  1:125062/1‑105 (MQ=255)                                    cAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  2:125062/109‑5 (MQ=255)                                    cAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCa                                                                                                >  2:255046/1‑139 (MQ=255)                                     agcgAATCTTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGGGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCaa                                                                                               >  2:588238/4‑139 (MQ=255)                                     aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGAt                                                                                                                  >  1:1393423/1‑120 (MQ=255)                                     aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGAt                                                                                                                  <  2:1393423/120‑1 (MQ=255)                                        gAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatca                                                                                            >  1:567667/1‑139 (MQ=255)                                         aaTATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatcat                                                                                           <  2:177915/139‑1 (MQ=255)                                         aaTATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatcat                                                                                           >  2:579922/1‑139 (MQ=255)                                                tGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGAt                                                                                                                  <  2:678299/109‑1 (MQ=255)                                                tGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGAt                                                                                                                  >  1:678299/1‑109 (MQ=255)                                                 ggggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTa                                                                                   >  1:276390/1‑139 (MQ=255)                                                   ggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGt                                                                                    <  2:1258854/136‑1 (MQ=255)                                                   ggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGt                                                                                    >  1:1258854/1‑136 (MQ=255)                                                     ggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGGGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATcc                                                                               <  1:588238/139‑1 (MQ=255)                                                            tcCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCa                                                                        >  2:585096/1‑139 (MQ=255)                                                                            aTAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGCTGc                                                                                                                >  2:1003741/1‑83 (MQ=255)                                                                            aTAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGc                                                                                                                <  1:1003741/83‑1 (MQ=255)                                                                              aaTTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGcc                                                      <  2:19333/139‑1 (MQ=255)                                                                                     gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGCGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCtt                                               >  2:762661/1‑139 (MQ=255)                                                                                      cacaGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTc                                              <  1:1285687/139‑1 (MQ=255)                                                                                           agaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCtt                                         >  2:5717/1‑139 (MQ=255)                                                                                                     atatGAAACGCGGGCACAGTTATCACCAGCCCGCCGaa                                                                                                                                     >  2:1000591/1‑38 (MQ=255)                                                                                                     atatGAAACGCGGGCACAGTTATCACCAGCCCGCCGaa                                                                                                                                     <  1:1000591/38‑1 (MQ=255)                                                                                                     atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               <  1:255046/139‑1 (MQ=255)                                                                                                     atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               <  1:1377976/139‑1 (MQ=255)                                                                                                       atGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCa                                                                                                                      >  2:457359/1‑50 (MQ=255)                                                                                                       atGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCa                                                                                                                      <  1:457359/50‑1 (MQ=255)                                                                                                        tGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAAt                                                                                                                        <  1:505296/47‑1 (MQ=255)                                                                                                        tGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAAt                                                                                                                        >  2:505296/1‑47 (MQ=255)                                                                                                        tGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAg                            <  2:569477/139‑1 (MQ=255)                                                                                                        tGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAg                            >  1:370614/1‑139 (MQ=255)                                                                                                          aaaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            <  1:757188/105‑1 (MQ=255)                                                                                                          aaaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            >  2:757188/1‑105 (MQ=255)                                                                                                          aaaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          <  1:755205/139‑1 (MQ=255)                                                                                                          aaaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          <  1:579922/139‑1 (MQ=255)                                                                                                          aaaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          <  2:567667/139‑1 (MQ=255)                                                                                                               cgGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCg                     >  2:146257/1‑139 (MQ=255)                                                                                                                gggCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGt                    >  2:807503/1‑139 (MQ=255)                                                                                                                  gCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAg                  >  2:1557062/1‑139 (MQ=255)                                                                                                                             aCCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg                                                                                         <  2:1003215/57‑1 (MQ=255)                                                                                                                             aCCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg                                                                                         >  1:1003215/1‑57 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatcatc                                                                                          <  2:406361/51‑1 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAatcatc                                                                                          >  1:406361/1‑51 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGCGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTa  >  1:1582301/1‑139 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          >  2:1482224/1‑115 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          <  1:1482224/115‑1 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCg                     >  2:390789/1‑120 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCg                     <  1:390789/120‑1 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGt                >  2:1241409/1‑125 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGt                <  1:1241409/125‑1 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTa  >  1:1295390/1‑139 (MQ=255)                                                                                                                                  cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCATAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTa  >  2:1306959/1‑139 (MQ=255)                                                                                                                                    cgccg‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                                    <  2:132807/103‑1 (MQ=255)                                                                                                                                    cgccg‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                                    >  1:132807/1‑103 (MQ=255)                                                                                                                                         |                                                                                                                                     TATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTA  >  NC_000913/1696312‑1696580

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: ‑