Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,487,535	T→C	L73P (CTG→CCG)	lptG →	lipopolysaccharide export ABC permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,487,535	0	T	C	100.0%	207.6 / NA	57	L73P (CTG→CCG)	lptG	lipopolysaccharide export ABC permease
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (31/26);  total (31/26)

GCTGTCGGGCATTATCAAGTTTGTCGATCAGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCTGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCGCCATTCCGCTGGTCTTGCTGACGA  >  NC_000913/4487401‑4487669                                                                                                                                       |                                                                                                                                       gCTGTCGGGCATTATCAAGTTTGTCGATCAGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCtt                                                                                                                                    <  2:1139939/139‑1 (MQ=255)            ttATCAAGTTTGTCGATCAGCTGAAAAAAGCCGGGCAGGGGCGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTgtt                                                                                                                         <  2:807561/139‑3 (MQ=255)                         cGATCAGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTgggg                                                                                                                                >  2:972365/1‑119 (MQ=255)                         cGATCAGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTgggg                                                                                                                                <  1:972365/119‑1 (MQ=255)                              aGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         >  2:1327215/1‑121 (MQ=255)                              aGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         <  1:1327215/121‑1 (MQ=255)                                                            acgCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGc                                                                         >  2:618527/1‑139 (MQ=255)                                                                                     cTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         >  1:807619/1‑66 (MQ=255)                                                                                     cTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         <  2:807619/66‑1 (MQ=255)                                                                                      ttGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGgcgcagcg                                                                                                 >  1:267627/1‑89 (MQ=255)                                                                                      ttGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGgcgcagcg                                                                                                 <  2:267627/89‑1 (MQ=255)                                                                                      ttGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTgg                                               >  1:357883/1‑139 (MQ=255)                                                                                       tGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         >  1:136016/1‑64 (MQ=255)                                                                                       tGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         <  2:136016/64‑1 (MQ=255)                                                                                       tGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGgcg                                                                                                      <  1:1267203/83‑1 (MQ=255)                                                                                       tGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGgcg                                                                                                      >  2:1267203/1‑83 (MQ=255)                                                                                       tGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGgc                                              >  2:731738/1‑139 (MQ=255)                                                                                        gCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         <  2:331566/63‑1 (MQ=255)                                                                                        gCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         >  1:331566/1‑63 (MQ=255)                                                                                        gCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGgcg                                             >  1:37251/1‑139 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCg                                                                                                                              >  1:1130500/1‑57 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCg                                                                                                                              <  2:1130500/57‑1 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCtt                                                                                                                        <  2:1057625/63‑1 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCtt                                                                                                                        >  1:1057625/1‑63 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCg                                                          >  2:475699/1‑125 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCg                                                          <  1:475699/125‑1 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGgcgc                                            >  2:816969/1‑139 (MQ=255)                                                                                         cTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGgcgc                                            <  2:37251/139‑1 (MQ=255)                                                                                            aGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGt                                         >  1:1084326/1‑139 (MQ=255)                                                                                              cGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCg                                       <  1:1341110/139‑1 (MQ=255)                                                                                               gTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         >  2:473737/1‑56 (MQ=255)                                                                                               gTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         <  1:473737/56‑1 (MQ=255)                                                                                                          tgtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGtga                                   <  2:1022612/131‑1 (MQ=255)                                                                                                          tgtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGtga                                   >  1:1022612/1‑131 (MQ=255)                                                                                                           gtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGcgcagcgcag                                                                                              <  2:873843/71‑1 (MQ=255)                                                                                                           gtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGcgcagcgcag                                                                                              >  1:873843/1‑71 (MQ=255)                                                                                                           gtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCa                                                                            <  1:360322/89‑1 (MQ=255)                                                                                                           gtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCa                                                                            >  2:360322/1‑89 (MQ=255)                                                                                                           gtgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCg                          >  1:555527/1‑139 (MQ=255)                                                                                                            tgCAGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCGc                         >  2:544154/1‑139 (MQ=255)                                                                                                               aGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         <  1:1184244/40‑1 (MQ=255)                                                                                                               aGATCTTCTTCCCGATGGCGGCTCCGCTTGGGGCGTTGCt                                                                                                                         >  2:1184244/1‑40 (MQ=255)                                                                                                                           cGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGt                                     >  2:774316/1‑112 (MQ=255)                                                                                                                           cGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGt                                     <  1:774316/112‑1 (MQ=255)                                                                                                                           cGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGaa                               >  2:343671/1‑118 (MQ=255)                                                                                                                           cGATGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGaa                               <  1:343671/118‑1 (MQ=255)                                                                                                                             aTGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAg                                                                           >  1:259146/1‑72 (MQ=255)                                                                                                                             aTGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAg                                                                           <  2:259146/72‑1 (MQ=255)                                                                                                                             aTGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGt                                         >  2:564747/1‑106 (MQ=255)                                                                                                                             aTGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGt                                         <  1:564747/106‑1 (MQ=255)                                                                                                                             aTGGCGACTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACt                                                                                        <  1:1209868/59‑1 (MQ=255)                                                                                                                             aTGGCGACTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACt                                                                                        >  2:1209868/1‑59 (MQ=255)                                                                                                                              tGGCGGCTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCGCCATTCCGCTGGTCTTGCt       <  2:357883/139‑1 (MQ=255)                                                                                                                                gcggcTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGaa                               <  2:328658/113‑1 (MQ=255)                                                                                                                                gcggcTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGaa                               >  1:328658/1‑113 (MQ=255)                                                                                                                                   gcTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCGCCATTCCGCTGGTCTTGCTGACGa  >  1:332220/1‑139 (MQ=255)                                                                                                                                   gcTCCGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCGCCATTCCGCTGGTCTTGCTGACGa  >  2:922842/1‑139 (MQ=255)                                                                                                                                       |                                                                                                                                       GCTGTCGGGCATTATCAAGTTTGTCGATCAGCTGAAAAAAGCCGGGCAGGGGAGTTACGACGCGTTAGGCGCAGGAATGTATACCTTGCTGAGCGTGCCGAAAGATGTGCAGATCTTCTTCCCGATGGCGGCTCTGCTTGGGGCGTTGCTTGGTCTTGGGATGCTGGCGCAGCGCAGCGAACTGGTGGTGATGCAGGCTTCTGGTTTTACCCGTATGCAGGTGGCGCTGTCGGTGATGAAAACCGCCATTCCGCTGGTCTTGCTGACGA  >  NC_000913/4487401‑4487669

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑