Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,424,543	Δ1 bp	coding (249/276 nt)	yjfY ←	YhcN family protein, periplasmic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,424,543	0	C	.	100.0%	220.1 / NA	53	coding (249/276 nt)	yjfY	YhcN family protein, periplasmic
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (27/26);  total (27/26)

TCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCTAGCGATAAATATCCGCGCTGGCGTGCATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTATGATTGATATAAAT  >  NC_000913/4424413‑4424671                                                                                                                                   |                                                                                                                                 tCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCg                                                                                                                         <  2:466140/139‑1 (MQ=255)              ggTCTAATTCCGCAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGtt                                                                                                            >  2:973554/1‑139 (MQ=255)                          cAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACt                                                                                                                    <  2:224138/119‑1 (MQ=255)                          cAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACt                                                                                                                    >  1:224138/1‑119 (MQ=255)                          cAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGaa                                                                                                <  2:1395889/139‑1 (MQ=255)                          cAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGaa                                                                                                >  1:1645023/1‑139 (MQ=255)                                tttttCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGt                                                                                          >  1:1013291/1‑139 (MQ=255)                                                   cTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTg                                                                       <  2:1013291/139‑1 (MQ=255)                                                            gggCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGt                                                              >  1:523569/1‑139 (MQ=255)                                                                     aaaCTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTa                                                                                             <  2:279123/99‑1 (MQ=255)                                                                     aaaCTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTa                                                                                             >  1:279123/1‑99 (MQ=255)                                                                         tATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAAt                                                 <  2:523569/139‑1 (MQ=255)                                                                         tATGGCAATGTTTCGTTGGTTATACCCGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAAt                                                 >  2:986566/1‑139 (MQ=255)                                                                              cAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTa                                                                                                                      <  2:1169899/65‑1 (MQ=255)                                                                              cAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTa                                                                                                                      >  1:1169899/1‑65 (MQ=255)                                                                              cAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTgcg                                                                            <  1:1477778/107‑1 (MQ=255)                                                                              cAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTgcg                                                                            >  2:1477778/1‑107 (MQ=255)                                                                                           gTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGgtagt                                                                                    <  1:911266/86‑1 (MQ=255)                                                                                           gTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGgtagt                                                                                    >  2:911266/1‑86 (MQ=255)                                                                                               taCCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAg                           >  2:1592705/1‑139 (MQ=255)                                                                                                     gtgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTcc                                                                                                          <  1:573273/50‑1 (MQ=38)                                                                                                     gtgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTcc                                                                                                          >  2:573273/5‑54 (MQ=38)                                                                                                     gtgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAg                           <  1:1646769/129‑1 (MQ=255)                                                                                                     gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTcc                                                                                                          >  1:1218157/1‑54 (MQ=38)                                                                                                     gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTcc                                                                                                          <  2:1218157/54‑1 (MQ=38)                                                                                                     gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTttctt                                                         <  1:717443/103‑1 (MQ=255)                                                                                                     gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTttctt                                                         >  2:717443/1‑103 (MQ=255)                                                                                                     gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAg                           >  2:1646769/1‑133 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGcc                                                                          >  1:860964/4‑85 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGcc                                                                          <  2:860964/82‑1 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTg                                                                       <  1:1255448/85‑1 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTg                                                                       >  2:1255448/4‑88 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCa                                                                   <  2:479604/89‑1 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCa                                                                   >  1:479604/4‑92 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCa                                                                   >  1:1632953/4‑92 (MQ=255)                                                                                                      tgttAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCa                                                                   <  2:1632953/89‑1 (MQ=255)                                                                                                         tAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAAtt                 >  1:632284/1‑139 (MQ=255)                                                                                                          aGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCTGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGtt                                                             >  1:35665/1‑94 (MQ=255)                                                                                                          aGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCTGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGtt                                                             <  2:35665/94‑1 (MQ=255)                                                                                                          aGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTg                                                                       >  2:493878/1‑84 (MQ=255)                                                                                                          aGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTg                                                                       <  1:493878/84‑1 (MQ=255)                                                                                                          aGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGAc                                          <  1:1316206/113‑1 (MQ=255)                                                                                                          aGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGAc                                          >  2:1316206/1‑113 (MQ=255)                                                                                                           gCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGgta                                                                                      >  2:1136658/1‑68 (MQ=255)                                                                                                           gCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGgta                                                                                      <  1:1136658/68‑1 (MQ=255)                                                                                                              aTAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTAtgat            <  2:1645023/139‑1 (MQ=255)                                                                                                               tAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTAtgatt           >  1:1156725/1‑139 (MQ=255)                                                                                                               tAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTAtga             <  2:1064656/137‑1 (MQ=255)                                                                                                               tAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTAtga             >  1:1064656/1‑137 (MQ=255)                                                                                                                        gcgcTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTATGATTGATATAAAt  <  2:1156725/139‑1 (MQ=255)                                                                                                                        gcgcTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTATGATTGATATAAAt  <  1:973554/139‑1 (MQ=255)                                                                                                                             ggCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACg                                                                                           <  2:1222012/45‑1 (MQ=38)                                                                                                                             ggCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACg                                                                                           >  1:1222012/1‑45 (MQ=38)                                                                                                                                   |                                                                                                                                 TCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAGCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCTAGCGATAAATATCCGCGCTGGCGTGCATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGCGAAATTATGATTGATATAAAT  >  NC_000913/4424413‑4424671

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑