Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,012,700	C→T	*105* (TAG→TAA)	fliE ←	flagellar basal‑body component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,012,700	0	C	T	100.0%	248.5 / NA	76	*105* (TAG→TAA)	fliE	flagellar basal‑body component
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (37/39);  total (37/39)

GCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCGGGTTCACCGAGA  >  NC_000913/2012569‑2012835                                                                                                                                    |                                                                                                                                        gcgTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTa                                                                                                                                       <  1:1221470/134‑1 (MQ=255)      taCGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATg                                                                                                                             <  1:1500906/139‑1 (MQ=255)           aTCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcat                                                                                                                        >  1:1349660/1‑139 (MQ=255)            tCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcatc                                                                                                                       <  2:1238880/139‑1 (MQ=255)              gTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCAc                                                                                                                     >  2:388341/1‑139 (MQ=255)                 gATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTc                                                                                                                  >  2:1128671/1‑139 (MQ=255)                        gAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATAc                                                                                                           <  1:1128671/139‑1 (MQ=255)                         aaaaCGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATAcg                                                                                                          <  2:1349660/139‑1 (MQ=255)                               ttCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGcca                                                                                                    <  1:304459/139‑1 (MQ=255)                                tCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   >  2:744118/1‑139 (MQ=255)                                 cAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccacc                                                                                                  <  1:744118/139‑1 (MQ=255)                                  aGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccacca                                                                                                 <  1:388341/139‑1 (MQ=255)                                        aGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAATAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCttat                                                                                           >  2:432167/1‑139 (MQ=255)                                              ccATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCa                                                                                     >  2:45297/1‑139 (MQ=255)                                                  tttAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   <  1:667005/121‑1 (MQ=255)                                                  tttAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   >  2:667005/1‑121 (MQ=255)                                                    tAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGaa                                                                               >  2:1392857/1‑139 (MQ=255)                                                           gAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                                <  2:787884/83‑1 (MQ=255)                                                           gAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                                >  1:787884/1‑83 (MQ=255)                                                            aaaTTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcat                                                                                                                        >  2:255646/1‑90 (MQ=255)                                                            aaaTTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcat                                                                                                                        <  1:255646/90‑1 (MQ=255)                                                                    tgagtTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGa                                                               <  1:45297/139‑1 (MQ=255)                                                                      agtTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCAtt                                                                       >  1:27584/1‑129 (MQ=255)                                                                      agtTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCAtt                                                                       <  2:27584/129‑1 (MQ=255)                                                                            ccccATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcatca                                                                                                                      <  1:500870/76‑1 (MQ=255)                                                                            ccccATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcatca                                                                                                                      >  2:500870/1‑76 (MQ=255)                                                                                atccatGCCCCACGCGGTGAGATCGGATGTAATTAACAATAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCttt                                                   <  1:432167/139‑1 (MQ=255)                                                                                 tccatGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCtttt                                                  >  2:383672/1‑139 (MQ=255)                                                                                 tccatGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCCGCATGCtcatca                                                                                                                      >  2:831382/1‑71 (MQ=255)                                                                                 tccatGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCCGCATGCtcatca                                                                                                                      <  1:831382/71‑1 (MQ=255)                                                                                     tGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcat                                                                                                                        <  1:1229457/65‑1 (MQ=255)                                                                                     tGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcat                                                                                                                        >  2:1229457/1‑65 (MQ=255)                                                                                           aCGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcatca                                                                                                                      <  1:1445103/61‑1 (MQ=255)                                                                                           aCGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCtcatca                                                                                                                      >  2:1445103/1‑61 (MQ=255)                                                                                           aCGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCAt                                                                  >  2:109987/1‑113 (MQ=255)                                                                                           aCGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCAt                                                                  <  1:109987/113‑1 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                                >  2:312308/1‑50 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                                >  2:1096308/1‑50 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                                <  1:1096308/50‑1 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGc                                                                                                                                <  1:312308/50‑1 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   >  1:1272959/1‑79 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   <  2:1272959/79‑1 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCt                                                                                  >  1:673635/1‑96 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCt                                                                                  <  2:673635/96‑1 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCAtt                                                                       <  2:309633/107‑1 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCAtt                                                                       >  1:309633/1‑107 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGt                                       >  2:1045885/1‑139 (MQ=255)                                                                                            cgcgGTGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGt                                       >  1:630645/1‑139 (MQ=255)                                                                                                 tGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCa                                              >  2:1503620/1‑127 (MQ=255)                                                                                                 tGAGATCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCa                                              <  1:1503620/127‑1 (MQ=255)                                                                                                   agaTCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATcaca                                <  1:1392857/139‑1 (MQ=255)                                                                                                   agaTCGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATcaca                                <  1:1045885/139‑1 (MQ=255)                                                                                                       cGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGa                                                                                <  2:1380944/87‑1 (MQ=255)                                                                                                       cGGATGTAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGa                                                                                >  1:1380944/1‑87 (MQ=255)                                                                                                             tAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCa                                                                                     >  2:1024566/1‑76 (MQ=255)                                                                                                             tAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCa                                                                                     <  1:1024566/76‑1 (MQ=255)                                                                                                             tAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacg                      >  2:935423/1‑139 (MQ=255)                                                                                                             tAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacg                      >  1:599222/1‑139 (MQ=255)                                                                                                             tAATTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacg                      >  1:225657/1‑139 (MQ=255)                                                                                                               aTTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCt                                                                                              >  2:1455967/1‑65 (MQ=255)                                                                                                               aTTAACAACAGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCt                                                                                              <  1:1455967/65‑1 (MQ=255)                                                                                                                ttAACAACAGGTTACAAAACTTACACCTGCATGCtcatca                                                                                                                      >  1:731015/1‑40 (MQ=255)                                                                                                                ttAACAACAGGTTACAAAACTTACACCTGCATGCtcatca                                                                                                                      <  2:731015/40‑1 (MQ=38)                                                                                                                   acaacaGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacgccacgc                <  1:53883/139‑1 (MQ=255)                                                                                                                   acaacaGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacgccacgc                >  1:1198760/1‑139 (MQ=255)                                                                                                                    caacaGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAacgccacgcc               <  1:383672/139‑1 (MQ=255)                                                                                                                       caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   <  2:881849/52‑1 (MQ=255)                                                                                                                       caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGccac                                                                                                   >  1:881849/1‑52 (MQ=255)                                                                                                                       caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGa                                                         <  2:144004/94‑1 (MQ=255)                                                                                                                       caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGa                                                         >  1:144004/1‑94 (MQ=255)                                                                                                                       caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGc                                                      <  1:1036960/97‑1 (MQ=255)                                                                                                                       caGGTTACAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGc                                                      >  2:1036960/1‑97 (MQ=255)                                                                                                                              cAAAACTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGAATATCGGTCATCACATCGTTTAACGCCACGCCGGGTTCACCg     >  2:1117325/1‑139 (MQ=255)                                                                                                                                 aaCTTACACCTGCATGCTCATCACTTCCTGATACGCCGcca                                                                                                    <  2:929133/41‑1 (MQ=255)                                                                                                                                 aaCTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGc                                                      <  1:1118980/87‑1 (MQ=255)                                                                                                                                 aaCTTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCGGGTTCACCgaga  <  2:599222/139‑1 (MQ=255)                                                                                                                                    |                                                                                                                                        GCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAACAGGTTACAAAACCTACACCTGCATGCTCATCACTTCCTGATACGCCGCCACCAGCTTATTACGCACCTGAATCCCCATTTGCATAGAAACTGAGGCTTTTTGCATATCGGTCATCACATCGTTTAACGCCACGCCGGGTTCACCGAGA  >  NC_000913/2012569‑2012835

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑