Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,400,218	A→G	intergenic (+16/‑70)	miaA → / → hfq	tRNA dimethylallyltransferase/RNA‑binding protein Hfq

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,400,218	0	A	G	100.0%	179.2 / NA	50	intergenic (+16/‑70)	miaA/hfq	tRNA dimethylallyltransferase/RNA‑binding protein Hfq
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (31/19);  total (31/19)

GGCTGCGTGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGACGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGT  >  NC_000913/4400105‑4400352                                                                                                                  |                                                                                                                                       ggCTGCGTGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAAt                                                                                                              >  2:286637/1‑140 (MQ=255)   cTGCGTGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCg                                                                                                            >  1:927781/1‑140 (MQ=255)      cGTGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGaaa                                                                                                         >  2:579376/1‑140 (MQ=255)        tGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAgg                                                                                                       >  2:960374/1‑140 (MQ=255)        tGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAgg                                                                                                       >  1:523880/1‑140 (MQ=255)         ggTTGGGAAGGGGTTCAC‑GGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGtt                                                                                                     <  2:282254/140‑1 (MQ=255)          gTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGtt                                                                                                     <  2:523880/140‑1 (MQ=255)                    ggTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACaa                                                                                           >  1:14137/1‑140 (MQ=255)                     gTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACaaa                                                                                          >  1:223440/1‑140 (MQ=255)                     gTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACaaa                                                                                          >  1:885747/1‑140 (MQ=255)                      ttCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACaaa                                                                                          >  2:118965/1‑139 (MQ=255)                      ttCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACaaa                                                                                          <  1:118965/139‑1 (MQ=255)                        cACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATaa                                                                                       >  1:142241/1‑140 (MQ=255)                            ggCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCat                                                                                   <  2:652192/140‑1 (MQ=255)                             gCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCata                                                                                  >  2:128366/1‑140 (MQ=255)                              cTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCatat                                                                                 >  1:429180/1‑140 (MQ=255)                              cTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCatat                                                                                 >  2:69741/1‑140 (MQ=255)                                  aCAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAgg                                                                             >  1:338989/1‑140 (MQ=255)                                   cAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGa                                                                            <  2:142241/140‑1 (MQ=255)                                       gAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATaa                                                                               <  1:24511/133‑1 (MQ=255)                                       gAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATaa                                                                               >  2:24511/1‑133 (MQ=255)                                        aaaaaCCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAaga                                                                       <  1:128366/140‑1 (MQ=255)                                             ccAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGaa                                                                  <  2:429180/140‑1 (MQ=255)                                                  aCAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCt                                                             <  1:579376/140‑1 (MQ=255)                                                         cgTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGc                                                      >  2:118398/1‑140 (MQ=255)                                                            gACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAAt                                                   <  2:885747/140‑1 (MQ=255)                                                             aCGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATc                                                  <  1:960374/140‑1 (MQ=255)                                                                   tATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACa                                            <  1:118398/140‑1 (MQ=255)                                                                           gttgttGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGt                                    >  2:775522/1‑140 (MQ=255)                                                                           gttgttGGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGt                                    >  1:541254/1‑140 (MQ=255)                                                                            ttgttgGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGtt                                   <  1:845822/140‑1 (MQ=255)                                                                             tgttgGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTc                                  >  2:545474/1‑140 (MQ=255)                                                                             tgttgGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTc                                  >  2:838603/1‑140 (MQ=255)                                                                             tgttgGTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTc                                  >  2:104674/1‑140 (MQ=255)                                                                                 ggTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGa                              <  2:541254/140‑1 (MQ=255)                                                                                 ggTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGa                              <  1:104674/140‑1 (MQ=255)                                                                                 ggTGCTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGa                              <  2:574467/140‑1 (MQ=255)                                                                                     cTATCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGTAATCTTTACAAGATCCGTTCCTGAACGc                          <  2:927781/140‑1 (MQ=255)                                                                                       aTCGCAGGCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCAc                        >  1:645969/1‑140 (MQ=255)                                                                                             ggCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGt                   >  1:712694/1‑139 (MQ=255)                                                                                             ggCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGt                   <  2:712694/139‑1 (MQ=255)                                                                                              gCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGc                          >  2:464283/1‑131 (MQ=255)                                                                                              gCTGAATGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGc                          <  1:464283/131‑1 (MQ=255)                                                                                                  aaTGTGTACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGaa             >  2:73923/1‑140 (MQ=255)                                                                                                        tACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGtt       >  1:244322/1‑140 (MQ=255)                                                                                                        tACAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGtt       >  1:290161/1‑140 (MQ=255)                                                                                                         aCAATTGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTc      >  1:49148/1‑140 (MQ=255)                                                                                                             ttGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGt  >  2:832954/1‑140 (MQ=255)                                                                                                             ttGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGt  >  2:256212/1‑140 (MQ=255)                                                                                                             ttGAGGCGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGt  >  1:888887/1‑140 (MQ=255)                                                                                                                  |                                                                                                                                       GGCTGCGTGGTTGGGAAGGGGTTCACTGGCTTGACAGTGAAAAACCAGAACAGGCGCGTGACGAAGTATTACAGGTTGTTGGTGCTATCGCAGGCTGAATGTGTACAATTGAGACGTATCGTGCGCAATTTTTTCAGAATCGAAAGGTTCAAAGTACAAATAAGCATATAAGGAAAAGAGAGAATGGCTAAGGGGCAATCTTTACAAGATCCGTTCCTGAACGCACTGCGTCGGGAACGTGTTCCAGT  >  NC_000913/4400105‑4400352

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑