Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,962,441	C→T	*108* (TAG→TAA)	ppdC ←	putative prepilin peptidase‑dependent protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,962,441	0	C	T	100.0%	154.3 / NA	48	*108* (TAG→TAA)	ppdC	putative prepilin peptidase‑dependent protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/20);  total (28/20)

ACTTTGCACCAGAATCATCTCTGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAGGTG  >  NC_000913/2962312‑2962571                                                                                                                                  |                                                                                                                                    aCTTTGCACCAGAATCATCTCTGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGa                                                                                                                            >  1:1337859/1‑139 (MQ=255)                   ctctGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCgg                                                                                                          <  1:226175/139‑1 (MQ=255)                         ttCGAAAGGATCGTCTAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAtc                                                                                                    >  2:464012/1‑139 (MQ=255)                         ttCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTc                                                                                                       <  1:397859/136‑1 (MQ=255)                         ttCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTc                                                                                                       >  2:397859/1‑136 (MQ=255)                           cGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAtctc                                                                                                  >  1:1382469/1‑139 (MQ=255)                                               tcgcgttcgACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTg                                                                             >  1:774794/1‑139 (MQ=255)                                                                   cATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATg                                                         >  2:294111/1‑139 (MQ=255)                                                                      cAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATg                                                         >  2:649821/1‑136 (MQ=255)                                                                      cAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATg                                                         <  1:649821/136‑1 (MQ=255)                                                                      cAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTg                                                      >  1:622341/1‑139 (MQ=255)                                                                           cTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAt                                                                                                     >  2:136374/1‑88 (MQ=255)                                                                           cTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCAt                                                                                                     <  1:136374/88‑1 (MQ=255)                                                                           cTTCCAGCACGTCCAGACGATTAGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGAcaca                                                 >  2:752879/1‑139 (MQ=255)                                                                             tCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACAt                                                >  1:353506/1‑139 (MQ=255)                                                                             tCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATc                                               >  2:1340941/1‑139 (MQ=255)                                                                              ccAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATcc                                              <  2:1337859/139‑1 (MQ=255)                                                                                 gCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGc                                           >  2:806222/1‑139 (MQ=255)                                                                                      tCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCg                                      <  1:94709/139‑1 (MQ=255)                                                                                      tCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCg                                      <  2:976992/139‑1 (MQ=255)                                                                                       ccAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGa                                     <  2:763337/139‑1 (MQ=255)                                                                                          gACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGGAGGCGGGTCATCTCGCCtt                                                                                             >  1:1039072/1‑81 (MQ=255)                                                                                          gACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCtt                                                                                             <  2:1039072/81‑1 (MQ=255)                                                                                                tGGAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCAt                            >  1:1437730/1‑139 (MQ=255)                                                                                                 ggAATGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCAtt                           <  2:774794/139‑1 (MQ=255)                                                                                                   aaTGGTAGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCg                         <  2:622341/139‑1 (MQ=255)                                                                                                         aGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGAc                   <  1:464012/139‑1 (MQ=255)                                                                                                         aGACCCTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGAc                   >  1:1387406/1‑139 (MQ=255)                                                                                                             ccTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑cccc                                                                                   <  1:107741/71‑1 (MQ=255)                                                                                                             ccTTAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑cccc                                                                                   >  2:107741/1‑71 (MQ=255)                                                                                                               ttAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAg                                                                                                              <  1:509886/43‑1 (MQ=255)                                                                                                               ttAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAg                                                                                                              >  2:509886/1‑43 (MQ=255)                                                                                                                tAACATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAg            >  1:1005724/1‑139 (MQ=255)                                                                                                                 aaCATAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGt           >  1:1513947/1‑139 (MQ=255)                                                                                                                    aTAGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTgg        <  1:1087758/139‑1 (MQ=255)                                                                                                                      aGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCa      <  1:1504074/139‑1 (MQ=255)                                                                                                                      aGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCa      <  1:735359/139‑1 (MQ=255)                                                                                                                      aGCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCa      <  1:624509/139‑1 (MQ=255)                                                                                                                       gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTgg        >  1:829032/1‑136 (MQ=255)                                                                                                                       gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTgg        <  2:829032/136‑1 (MQ=255)                                                                                                                       gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  2:53470/1‑139 (MQ=255)                                                                                                                       gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  1:1044074/1‑139 (MQ=255)                                                                                                                       gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  1:1008279/1‑139 (MQ=255)                                                                                                                       gCGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGCAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAg     >  1:1152434/1‑139 (MQ=255)                                                                                                                        cGGCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAgg    >  1:386339/1‑139 (MQ=255)                                                                                                                          gCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACAt                                                >  2:1590071/1‑93 (MQ=255)                                                                                                                          gCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACAt                                                <  1:1590071/93‑1 (MQ=255)                                                                                                                          gCTCCTGATTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAGGTg  >  1:636953/1‑139 (MQ=255)                                                                                                                                  |                                                                                                                                    ACTTTGCACCAGAATCATCTCTGGTTCGAAAGGATCGTCCAGCCGTTCGCGTTCGACAATAAACTCCATCAACGCTTCCAGCACGTCCAGACGATTGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTG‑CCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGCCAGTTGGCAGGTG  >  NC_000913/2962312‑2962571

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑