Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,665,920	G→A	Q162Q (CAG→CAA)	csiE →	stationary phase‑inducible protein CsiE

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,665,920	0	G	A	100.0%	97.4 / NA	31	Q162Q (CAG→CAA)	csiE	stationary phase‑inducible protein CsiE
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (19/12);  total (19/12)

CCAACGTTTGTGTTTATTTCACTGGCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAGCACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGCGTCAGTCTATCAAACGT  >  NC_000913/2665680‑2666154                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                           ccAACGTTTGTGTTTATTTCACTGGCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGCATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAAACGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTg                                                                                                                                                                                                                                  >  1:251429/1‑251 (MQ=255)            gtTTATTTCACTGGCTACGAAGAGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAGTCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCt                                                                                                                                                                                                                       >  1:128296/1‑251 (MQ=255)               tATTTCACTGGCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTc                                                                                                                                                                                                                      >  1:151795/1‑249 (MQ=255)                  ttCACTGGCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGCAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGTAATTCCGCCTCAGttt                                                                                                                                                                                                                 >  2:356834/1‑251 (MQ=255)                      cTGGCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATc                                                                                                                                                                                                             >  1:69022/1‑251 (MQ=255)                        ggCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATc                                                                                                                                                                                                             <  1:362976/249‑1 (MQ=255)                                        ccGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTggg                                                                                                                                                                                           >  1:51675/1‑251 (MQ=255)                                                    gTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGcc                                                                                                                                                                               >  1:260215/1‑251 (MQ=255)                                                       aTTTATTACCAACCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCCCGGAATTGCGCGAAACATTTACGACGATACCAATATACAACCGATAGTAAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGAGACTGTATCTGCACTATTGTTTGCTGCAACCCCACGCTGGAATTACGCCTCAGTTTAATCCGCTCAAACGTCGCTGAGCGGAATCCTGCCTTg                                                                                                                                                                            >  1:272743/1‑251 (MQ=255)                                                            ttaCCAGCCAATTCAACCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAAttt                                                                                                                                                                       >  1:327977/1‑251 (MQ=255)                                                                    cAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAgc                                                                                                                                                               >  1:231536/1‑251 (MQ=255)                                                                              ccGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACCAGCGTTAGTGAATCTCTGATCCCGACGGCTGAAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAAtt                                                                                                                                                     >  1:166474/1‑251 (MQ=255)                                                                                     gAAGAGTGAACTGCAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGCCGGCTGACCAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACAACACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACATCGCTGGGCGGAATTCTGCCTTGTATTTCCGGTAGCGCAGGAAATTGGACGcc                                                                                                                                              >  2:336328/1‑251 (MQ=255)                                                                                     gAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACg                                                                                                                                                <  1:191267/249‑1 (MQ=255)                                                                                                           ggAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCa                                                                                                                        <  1:145664/251‑1 (MQ=255)                                                                                                                  cgcgTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGt                                                                                                                  >  1:170828/1‑250 (MQ=255)                                                                                                                         cTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTATACCACCtg                                                                                                          >  2:35410/1‑251 (MQ=255)                                                                                                                                     aaCCAATCTCCAAGCGTGAGGGAATCTCTGCTCCCCACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATGACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACGGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGt                                                                                              <  2:69022/250‑1 (MQ=255)                                                                                                                                                        gTGAATCTCGGCTCCCGACGTCTGCAAAACCGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCTCTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACttttctc                                                                           <  2:357188/251‑4 (MQ=255)                                                                                                                                                                     cccGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGt                                                               <  1:43430/250‑1 (MQ=255)                                                                                                                                                                               gCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCAt                                                    >  1:305175/1‑251 (MQ=255)                                                                                                                                                                                  aaaaCGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGc                                                 >  1:213302/1‑251 (MQ=255)                                                                                                                                                                                  aaaaCGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGc                                                 <  2:241617/251‑1 (MQ=255)                                                                                                                                                                                      cGCTTTGAATCGCGCGATATGCATTTCCTGGGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGa                                             <  2:260215/251‑1 (MQ=255)                                                                                                                                                                                                                ccTGTGTCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAAGCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGc                   <  1:298572/251‑1 (MQ=255)                                                                                                                                                                                                                      tCTGTATCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGCGTCAGt             >  1:209036/1‑251 (MQ=255)                                                                                                                                                                                                                       cgttatcttcacaatTGTTTGCTGCAACACCCCGCTGGAATTACGCCTCAGTTGAATCCGCTCCATCGTCCCTGGTCGGAAGCCTGCATAGATTTTCAGGGAGCGCAGGAAAGTGGACGCCACTGGCAGCGTCGGTCGCTCCAGCCTGTACCACCTTATGAGCCACTTTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGATATACAATTCCGTCAGt             <  2:89861/237‑1 (MQ=255)                                                                                                                                                                                                                           aTCTGCAATATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGCGTCAGTCTATc        >  1:172897/1‑251 (MQ=255)                                                                                                                                                                                                                              tGCACTATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCCCTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCCGCGGGACAGACAATTGCTTCAGTCTATCaa      >  2:72135/1‑250 (MQ=255)                                                                                                                                                                                                                               gCAATATTGTTTTCTGCAACACCACGCTGGAATGACTCCTCAGGTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGTAAATTGGACGCCACTGGCAGCGTCGGGCGCGCCAGCCTGTACCACCGGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGCGTCATTCTATCAAAc    <  1:279950/251‑1 (MQ=255)                                                                                                                                                                                                                                 aaTATTGTTTGCTGCAACACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTGTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGCGTCAGTCTATCAAACGt  <  1:192231/251‑1 (MQ=255)                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                           CCAACGTTTGTGTTTATTTCACTGGCTACGACGTGGTTTCCGTCTGTGTCCGTCATTTATTACCAGCCAATTCACCCCCGCCCTGAAGAGTGAACTGAAGCGGCGCGGAATTGCGCGTAACTTTTACGACGATACCAATCTACAAGCGTTAGTGAATCTCTGCTCCCGACGGCTGCAAAAACGCTTTGAATCGCGCGATATTCATTTCCTGTGTCTGTATCTGCAATATTGTTTGCTGCAGCACCACGCTGGAATTACGCCTCAGTTTAATCCGCTCCAACGTCGCTGGGCGGAATCCTGCCTTGAATTTCAGGTAGCGCAGGAAATTGGACGCCACTGGCAGCGTCGGGCGCTCCAGCCTGTACCACCTGATGAGCCACTGTTTATGGCACTACTTTTTTCCATGTTGCGGGTTCCCGATCCATTGCGGGATGCGCATCAGCGGGACAGACAATTGCGTCAGTCTATCAAACGT  >  NC_000913/2665680‑2666154

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑