Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,478,101	T→C	intergenic (‑685/‑64)	unknown ← / → unknown	Metal‑dependent hydrolase YbeY, involved in rRNA and/or ribosome maturation and assembly/Flp pilus assembly protein, pilin Flp

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,478,101	0	T	C	100.0%	75.5 / NA	28	intergenic (‑685/‑64)	unknown/unknown	Metal‑dependent hydrolase YbeY, involved in rRNA and/or ribosome maturation and assembly/Flp pilus assembly protein, pilin Flp
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (17/11);  total (17/11)

TCAATAGGGAAAGTAGAAATAGCTCATTTACAATAACCCTTAACATACTGTTAATTAAAAA‑TTTTCGCAATCACAATACATACATATACGTAGTGAATTTATTATTCT‑AAAAAACTTGCATTTTAATTTTTCAGGACTATAATGCCACTCGTTTATTTAATTCCACAAGATTATTAAATAAATGACATTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACCTTAATTACGAAAGCATACATCAAAGCAACCGAAGCAATCCGTTCTTTCAAAAAAAATCAAGCAGGTGTGACTGCAATTGAATACGGTTTGATCGCCATTGCTGTTGCCGTGTTAATCGTTGCTGTATTCTACAGCGACAATGGTTTTATTAAGGGCTTACAAA  >  1/1477914‑1478339                                                                                                                                                                                              |                                                                                                                                                                                                                                               tCAATAGAGAAAGTAGAAATAGCTCATTTACAATAACCCTTAACATACTGTTAATTAAAAAGTTTTCGCAATCACAATACGTACATATACATAGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGAc                                                                                                                                                                                  <  1:225005/251‑1 (MQ=255)                             tACAATAACCCTTAACATACTGTTAATTAAAAAGTTTTCGCAATCACAATACGTACATATACATAGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCa                                                                                                                                                      >  1:484344/1‑251 (MQ=255)                                     cccTTAACATACTGTTAATTAAAAAGTTTTCGCAATCACAATACGTACATATACATAGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAg                                                                                                                                                                                    <  1:497732/213‑1 (MQ=255)                                          aaCATACTGTTAATTAAAAAGTTTTCGCAATCACAATACGTACATATACATAGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGAc                                                                                                                                                                                  >  1:199993/1‑210 (MQ=255)                                                                                  tacatatacataGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATAc                                                                                                                                                                      >  1:382401/1‑182 (MQ=255)                                                                                    cataTACATAGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGAc                                                                                                                                                                                  >  1:566836/1‑168 (MQ=255)                                                                                    cataTACATAGTGAATTTATTATTCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGa                                                                                               >  1:110562/1‑251 (MQ=255)                                                                                                         attCTAAAAAAACTTGCATTTTAATTTTTCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACaa                                                                                                                                                                                <  1:568183/149‑1 (MQ=255)                                                                                                                                   tttCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGc                                                                                                                                  <  1:424453/169‑1 (MQ=255)                                                                                                                                   tttCAGGACTAT‑ATACCGGTCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATc                                                <  1:625438/251‑1 (MQ=255)                                                                                                                                           actatataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAAt                                                                                                                                                                        <  1:497720/112‑1 (MQ=255)                                                                                                                                           actatataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTg                                                                                            >  1:17186/13‑200 (MQ=255)                                                                                                                                           actatataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTg                                                              >  1:253314/13‑230 (MQ=255)                                                                                                                                           actatataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTg                                                              >  1:664083/13‑230 (MQ=255)                                                                                                                                           actatataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGcag                                         >  1:468214/13‑249 (MQ=255)                                                                                                                                            ctatataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGc                                                                                                                                           >  1:411900/12‑152 (MQ=255)                                                                                                                                              atataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGAt                                                                         <  1:318791/207‑1 (MQ=255)                                                                                                                                              atataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTAt                                      >  1:627293/10‑251 (MQ=255)                                                                                                                                              atataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTAt                                      >  1:706114/10‑251 (MQ=255)                                                                                                                                              atataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTAt                                      >  1:884156/10‑251 (MQ=255)                                                                                                                                                ataccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTATTc                                    <  1:28335/244‑1 (MQ=255)                                                                                                                                                   ccggtCGTTTATTTAATTCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTATTCTAc                                 <  1:558000/247‑1 (MQ=255)                                                                                                                                                                    tCCACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTATTCTACAGCAACAATGGTTttat                <  1:714491/251‑1 (MQ=255)                                                                                                                                                                     ccACAAGCTTATTAAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTATTCTACAGCAACAATGGttt                   <  1:488632/247‑1 (MQ=255)                                                                                                                                                                          agcttattaAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTATTCTACAGCAACAATGGTTttatcgctaa          >  1:164569/4‑245 (MQ=255)                                                                                                                                                                            cttattaAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGc                                                                >  1:16545/2‑195 (MQ=255)                                                                                                                                                                             ttattaAATAAATGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGAt                                                                         >  1:54615/1‑185 (MQ=255)                                                                                                                                                                                  aaataaatGACACTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACTTTAACTACTAAAGCATACATCAAAGCAGCTGAAGCAATCCGTTCTTTCAGAGAAAATCAAGCAGGTGTGACTGCAATTGAATATGGTTTGATCGCTATTGCTGTTGCCGTGTTAATCGTTGCAGTATTCTACAGCAACAATGGTTttatcgctaacttacaaa  >  1:528346/1‑237 (MQ=255)                                                                                                                                                                                              |                                                                                                                                                                                                                                               TCAATAGGGAAAGTAGAAATAGCTCATTTACAATAACCCTTAACATACTGTTAATTAAAAA‑TTTTCGCAATCACAATACATACATATACGTAGTGAATTTATTATTCT‑AAAAAACTTGCATTTTAATTTTTCAGGACTATAATGCCACTCGTTTATTTAATTCCACAAGATTATTAAATAAATGACATTAAGTTCAAACTCAAGGATTCTTGAATTTTATTTTCTATAAACAACAAAGGAGCATTAAGACAATGTTAAATACCTTAATTACGAAAGCATACATCAAAGCAACCGAAGCAATCCGTTCTTTCAAAAAAAATCAAGCAGGTGTGACTGCAATTGAATACGGTTTGATCGCCATTGCTGTTGCCGTGTTAATCGTTGCTGTATTCTACAGCGACAATGGTTTTATTAAGGGCTTACAAA  >  1/1477914‑1478339

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑