Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,778,119	C→T	intergenic (+337/+27)	ypjF → / ← ypjA	toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter YpjA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,778,119	0	C	T	100.0%	86.5 / NA	30	intergenic (+337/+27)	ypjF/ypjA	toxin of the YpjF‑YfjZ toxin‑antitoxin system/adhesin‑like autotransporter YpjA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (16/14);  total (16/14)

TTTTAGGACCAACAATGGGACCAAAATGAAAATTGAACTGAAGATTACAATCAATTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACTTTCACCCGGTTATCATCGACAAATTCTT  >  NC_000913/2777886‑2778351                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                         ttttAGGACCAACAATGGGACCAAAATGAAAATTGAACTGAAGATTACAATCAATTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCttttt                                                                                                                                                                                                                         >  1:264781/1‑251 (MQ=255)   ttAGGACCAACAATGGGACCAAAATGAAAATTGAACTGAAGATTACAATCAATTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGCTACGCAAAGAAGACGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCg                                                                                                                                                                                                                       >  2:436227/1‑251 (MQ=255)                      cAAAATGAAAATTGAACTGAAGATTACAAACAATTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCGCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCa                                                                                                                                                                                                    <  2:437648/251‑1 (MQ=255)                                  tGAACTGAAGATTACAATCAATTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACAAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTAGTTGATGGTCAGAACGACCAGTTCACACCAGc                                                                                                                                                                                        >  1:68992/1‑251 (MQ=255)                                                     aatTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGCCCAGTTCACACCAGCTACCGCGTTCCACGGGGAt                                                                                                                                                                     >  2:82921/1‑251 (MQ=255)                                                                  gTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCAc                                                                                                                                                        >  1:171764/1‑251 (MQ=255)                                                                      cacaACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACCCCGACACTATg                                                                                                                                                    >  2:68242/1‑251 (MQ=255)                                                                             aaTTCAGAATCCGCCAGCCCACCAATCATGATTGGAAGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGGGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCTGAACGACCAGTTCACACCAGCTACAGCGTTCCACGGGGATTCCACACAGGCACTATGGCTATac                                                                                                                                             >  1:258338/1‑251 (MQ=255)                                                                                 cAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATacccc                                                                                                                                          >  1:202750/1‑250 (MQ=255)                                                                                     cTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGAACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATaccccacccc                                                                                                                                     >  1:128108/1‑251 (MQ=255)                                                                                               ccaccaATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCg                                                                                                                           <  2:406113/251‑1 (MQ=255)                                                                                                     aTCATGAGTGGTCGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCATCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTGTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTGCCACGGGGATTCCACCCCGGCACTATGGCTAGACCCCACCCCAAGAGGCCTTCTTAAc                                                                                                                     <  2:59877/251‑1 (MQ=38)                                                                                                                  ggTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATg                                                                                                        >  1:312087/1‑251 (MQ=255)                                                                                                                         ggACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCttt                                                                                                 <  2:224104/251‑1 (MQ=255)                                                                                                                                       aaaaCAGGAAGTTAGAAGTCTCAGCAAACCACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACCGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCCCACCGGCACTCTGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGCGGCTTTAATACCTGCCTGGt                                                                                   >  2:347213/1‑251 (MQ=255)                                                                                                                                       aaaaCAGGAAGTTAGAAGTCTCAGCAAAACACCGCCCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATAcctgcct                                                                                      >  1:128475/1‑248 (MQ=255)                                                                                                                                       aaaaCAGGAAGTAAAAAGTCCCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGTAGCCGCGGCTCCTGGGAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGTGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATAcctgcct                                                                                      <  2:128475/248‑1 (MQ=37)                                                                                                                                            aGGATGTTAGAAGTATCAGCAAAAACCCGTCCAGACGGGGACGAGACAGAAAAGTATACGCAAAGTAGCCGCGGCTCCGGGTAACATGAAAACATAAAGAATTGGGCTTTGTCGTTGATGGTCAGAACGACCAGGTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACGATGGCTATACCCCACCCCATGATGCCCGCTTAACGTACTGCGGAATGAGGCTTTAATACATGCCTGGtatagt                                                                              <  2:272300/251‑3 (MQ=18)                                                                                                                                                    aGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGTGAAAAAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATTCCTGCCTGGTATATTCCACGTCt                                                                      <  2:25383/251‑1 (MQ=255)                                                                                                                                                            cAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACa                                                              <  2:202750/251‑1 (MQ=255)                                                                                                                                                                aaaaCACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAaata                                                          <  2:157554/251‑1 (MQ=255)                                                                                                                                                                           cAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAAt                                               >  1:11135/1‑251 (MQ=255)                                                                                                                                                                              aCGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCCAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATCTTCCACGTCTGCCCGCCAAATAATTGACGACATTAc                                            >  2:426914/1‑251 (MQ=255)                                                                                                                                                                                             aaaaGGATACGCAAAGGAGCCGCGGCTCCTTGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGACCGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACt                              <  1:389718/250‑1 (MQ=255)                                                                                                                                                                                                  gattcGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACTTTCAcc                        <  1:426914/247‑1 (MQ=255)                                                                                                                                                                                                     aCGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACTTTCACCCgg                     <  1:347213/251‑1 (MQ=255)                                                                                                                                                                                                            ggAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCATCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACTTCTGCCCGACAAATAATTGACGAAATGACCGTCACTATTCACGTTCACCCGGTTatcat              <  2:238825/251‑1 (MQ=255)                                                                                                                                                                                                            ggAGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACTTTCACCCGGGTatcat              <  1:68242/251‑1 (MQ=255)                                                                                                                                                                                                              aGCCGCGGCTCCTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCCTCACTATTCACTTTCACCCGGTTATCATCg            >  1:48526/1‑251 (MQ=255)                                                                                                                                                                                                                        ccTGGTAACATGAAAGCCTACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACTTTCACCCGGTTATCATCGACAAATTCtt  >  1:121786/1‑251 (MQ=255)                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                         TTTTAGGACCAACAATGGGACCAAAATGAAAATTGAACTGAAGATTACAATCAATTTAACAACAAGTTACACAACCAATTCAGACTCCGCCAGCCCACCAATCATGATTGGACGGTGTAAGGACAACACCAACAAAAACAGGAAGTTAGAAGTCTCAGCAAAACACCGACCAGACGGTGAGGAGACATAAAAGGATACGCAAAGGAGCCGCGGCTCCTGGTAACATGAAAGCCCACAGATGTGGGCTTTTTCGTTGATGGTCAGAACGACCAGTTCACACCAGCTACCGCGTTCCACGGGGATTCCACACCGGCACTATGGCTATACCCCACCCCAAGATGCCCGCTTAACGTACTGCTGAATGAGGCTTTAATACCTGCCTGGTATATTCCACGTCTGCCCGACAAATAATTGACGAAATTACCGTCACTATTCACTTTCACCCGGTTATCATCGACAAATTCTT  >  NC_000913/2777886‑2778351

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑