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%	214.5 / NA	51	intergenic (‑377/+14)	uidA/uidR	beta‑D‑glucuronidase/transcriptional repressor
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (27/24);  total (27/24)

GGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTA  >  NC_000913/1696317‑1696580                                                                                                                                    |                                                                                                                                     ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  1:1403216/139‑5 (MQ=255) ggAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  2:379067/139‑5 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  1:1207196/115‑5 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               >  2:1207196/1‑111 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaa                                                                                                                                     >  1:1135026/1‑109 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaa                                                                                                                                     <  2:1135026/109‑1 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGa                                                                                                        <  1:743777/137‑1 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGa                                                                                                        >  2:743777/1‑137 (MQ=255)                         tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATa                                                                                                      >  1:498198/1‑139 (MQ=255)                               cAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCa                                                                                                >  1:1406555/1‑139 (MQ=255)                               cAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCa                                                                                                >  1:1471300/1‑139 (MQ=255)                                aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGTCCGCCGaaaagaga                                                                                                                               >  2:988798/1‑104 (MQ=255)                                aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGaaaagaga                                                                                                                               <  1:988798/108‑5 (MQ=255)                                aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAAt                                                                                                                        <  2:901071/114‑1 (MQ=255)                                aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAAt                                                                                                                        >  1:901071/1‑114 (MQ=255)                                 gTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAat                                                                                              >  2:1116452/1‑139 (MQ=255)                                           tGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGt                                                                                    >  2:1199899/1‑139 (MQ=255)                                                ggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCaa                                                                                               <  2:1105678/123‑1 (MQ=255)                                                ggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCaa                                                                                               >  1:1105678/1‑123 (MQ=255)                                                ggAATTCTCCGAAGCCGGGAAGGATAAATTTTGCACAGAGAGATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATcc                                                                               >  2:110787/1‑139 (MQ=255)                                                           aaGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAacg                                                                    <  1:1116452/139‑1 (MQ=255)                                                            aGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAAt                                                                                                                        >  2:1258828/1‑86 (MQ=255)                                                            aGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAAt                                                                                                                        <  1:1258828/86‑1 (MQ=255)                                                               cGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTACCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGc                                                                <  2:662634/139‑1 (MQ=255)                                                                 ggAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCtt                                                              >  1:501634/1‑139 (MQ=255)                                                                 ggAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCtt                                                              >  1:1171854/1‑139 (MQ=255)                                                                   aaGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            <  2:1171854/139‑1 (MQ=255)                                                                       aTAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCAcgcg                                                        <  2:501634/139‑1 (MQ=255)                                                                             tttGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            <  2:1295687/129‑1 (MQ=255)                                                                             tttGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            >  1:1295687/1‑129 (MQ=255)                                                                                gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCtt                                               >  1:589958/1‑139 (MQ=255)                                                                                     gagaAATTACGATATGAAACGCGGGCATAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGa                                                                                                                   >  2:916065/1‑66 (MQ=255)                                                                                     gagaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGa                                                                                                                   <  1:916065/66‑1 (MQ=255)                                                                                     gagaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATgag                                                                                                               >  1:742904/1‑68 (MQ=255)                                                                                     gagaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATgag                                                                                                               <  2:742904/70‑3 (MQ=255)                                                                                     gagaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCt                                          >  1:433566/1‑139 (MQ=255)                                                                                      agaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAagagaga                                                                                                                            >  1:1101201/1‑56 (MQ=255)                                                                                      agaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAagagaga                                                                                                                            <  2:1101201/56‑1 (MQ=255)                                                                                      agaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCtt                                         >  2:345797/1‑139 (MQ=255)                                                                                      agaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCtt                                         >  2:216261/1‑139 (MQ=255)                                                                                           ttACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                                    <  2:1406555/139‑1 (MQ=255)                                                                                           ttACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                                    <  1:216261/139‑1 (MQ=255)                                                                                             aCGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATc                                  <  2:1471300/139‑1 (MQ=255)                                                                                                atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               <  2:433566/139‑1 (MQ=255)                                                                                                atatGAAACGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               <  2:498198/139‑1 (MQ=255)                                                                                                     aaaCGCGGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          <  1:1199899/139‑1 (MQ=255)                                                                                                        cgcgGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCtt                                                              <  1:1289095/100‑1 (MQ=255)                                                                                                        cgcgGGCACAGTTATCACCAGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCtt                                                              >  2:1289095/1‑100 (MQ=255)                                                                                                                           aGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            >  1:794248/1‑83 (MQ=255)                                                                                                                           aGCCCGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                            <  2:794248/83‑1 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                                    <  1:200594/105‑1 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                                    >  2:200594/1‑105 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               <  2:605501/110‑1 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               <  2:1312544/110‑1 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               >  1:605501/1‑110 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                               >  1:1312544/1‑110 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          <  1:80321/115‑1 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                          >  2:80321/1‑115 (MQ=255)                                                                                                                             cccGCCG‑AAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTa  >  1:21587/1‑139 (MQ=255)                                                                                                                                    |                                                                                                                                     GGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAGCAGTA  >  NC_000913/1696317‑1696580

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑