Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,220,432	A→G	pseudogene (832/2648 nt)	ycgH →	putative transporter component, N‑terminal fragment

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,220,432	0	A	G	100.0%	161.4 / NA	46	pseudogene (832/2648 nt)	ycgH	putative transporter component, N‑terminal fragment
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (25/21);  total (25/21)

AATAGCTATGGTGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTACAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAATATCAATTGATGCATCAAATATCGATTCTCA  >  NC_000913/1220297‑1220559                                                                                                                                        |                                                                                                                                aaTAGCTATGGTGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTgcaac                                                                                                                             >  1:363090/1‑140 (MQ=255)    aGCTATGGTGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTgcaacaac                                                                                                                          <  2:41476/140‑1 (MQ=255)       tATGGTGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAgg                                                                                                                       <  2:415673/140‑1 (MQ=255)         tGGTGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCa                                                                                                                     <  2:669485/140‑1 (MQ=255)            tGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTa                                                                                                                  >  1:695470/1‑140 (MQ=255)                tATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGc                                                                                                              >  1:112576/1‑140 (MQ=255)                tATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGc                                                                                                              >  2:401032/1‑140 (MQ=255)                   gCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCa                                                                                                                     <  1:339489/130‑1 (MQ=255)                   gCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCa                                                                                                                     >  2:339489/1‑130 (MQ=255)                   gCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGcccc                                                                                                           <  2:152500/140‑1 (MQ=255)                      aaTGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCAt                                                                                                        >  2:565272/1‑140 (MQ=255)                      aaTGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCAt                                                                                                        >  1:83935/1‑140 (MQ=255)                        tGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTg                                                                                                      <  2:75014/140‑1 (MQ=255)                          ggAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAATCTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCa                                                                                                    <  2:695470/140‑1 (MQ=255)                          ggAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCa                                                                                                    >  2:188073/1‑140 (MQ=255)                             aaaaaGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCaaaa                                                                                                 <  2:42882/140‑1 (MQ=255)                             aaaaaGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCaaaa                                                                                                 >  2:164415/1‑140 (MQ=255)                                aaGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAata                                                                                              <  1:565272/140‑1 (MQ=255)                                  gCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAAtata                                                                                            <  2:7547/140‑1 (MQ=255)                                     tatatTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACaa                                                                                         <  2:112576/140‑1 (MQ=255)                                      atatTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAAt                                                                                        >  1:695892/1‑140 (MQ=255)                                            aTTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAAtggtg                                                                                    >  1:383726/1‑138 (MQ=255)                                            aTTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAAtggtg                                                                                    <  2:383726/138‑1 (MQ=255)                                                 gATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGtt                                                                             >  2:689538/1‑140 (MQ=255)                                                 gATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGtt                                                                             >  2:257819/1‑140 (MQ=255)                                                  aTTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTa                                                                            >  1:348131/1‑140 (MQ=255)                                                       gtgGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTAttttt                                                                       >  2:361078/1‑140 (MQ=255)                                                          gCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTc                                                                    <  2:66597/140‑1 (MQ=255)                                                                       tgGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAGAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACcgcg                                                       >  1:37272/1‑140 (MQ=255)                                                                        ggCTGATGGAAGTTGTGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCgg                                                      >  1:26116/1‑140 (MQ=255)                                                                        ggCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCgg                                                      >  1:203081/1‑140 (MQ=255)                                                                              tGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCaa                                                >  1:525496/1‑140 (MQ=255)                                                                              tGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCaa                                                <  1:206490/140‑1 (MQ=255)                                                                                  aGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACa                                            <  2:695892/140‑1 (MQ=255)                                                                                     tATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGa                                         <  1:568122/140‑1 (MQ=255)                                                                                       tGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCaaaa                                              >  1:741514/1‑133 (MQ=255)                                                                                       tGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCaaaa                                              <  2:741514/133‑1 (MQ=255)                                                                                       tGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATa                                       >  2:176874/1‑140 (MQ=255)                                                                                        gCAGTTGCTATTCGAGAAGGTAACAGTGATATAAAAAATACTTCTATTGCAGCAACGGGCACTAAAGCCGCCATTGCAAAAATATACAACGGTGGAGAGTTATTTTTTTCGAATGTCTCCGCGGTATCAAAACAAGATaa                                      <  2:691851/140‑1 (MQ=255)                                                                                        gCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATaa                                      <  1:164415/140‑1 (MQ=255)                                                                                            ttGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGa                                  <  2:37272/140‑1 (MQ=255)                                                                                            ttGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGa                                  <  1:401032/140‑1 (MQ=255)                                                                                            ttGCTATCCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGa                                  >  1:542783/1‑140 (MQ=255)                                                                                              gCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAat                                >  1:759457/1‑140 (MQ=255)                                                                                              gCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAat                                <  2:26116/140‑1 (MQ=255)                                                                                                 aTTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAATATc                             >  2:16666/1‑140 (MQ=255)                                                                                                        aaGGTAACATTGATATAAAAAATAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAATATCAATTGAt                      <  1:361078/140‑1 (MQ=255)                                                                                                                           aaaTAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAATATCAATTGATGCATCAAATATCGATtctc   >  2:521040/1‑140 (MQ=255)                                                                                                                            aaTAGTTCTATTGCAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAATATCAATTGATGCATCAAATATCGATTCTCa  >  1:115380/1‑140 (MQ=255)                                                                                                                                        |                                                                                                                                AATAGCTATGGTGCTTATGCTAATGGGAAAAAAGCATATATTAATTTAGATTATGTGGCACTTGAAACTGTGGCTGATGGAAGTTATGCAGTTGCTATTCGACAAGGTAACATTGATATAAAAAATAGTTCTATTACAACAACAGGCACTAAAGCCCCCATTGCAAAAATATACAATGGTGGAGAGTTATTTTTTTCCAATGTCACCGCGGTATCAAAACAAGATAAAGGAATATCAATTGATGCATCAAATATCGATTCTCA  >  NC_000913/1220297‑1220559

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑