Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,485,716	A→G	K167K (AAA→AAG)	unknown →	Type II/IV secretion system protein TadC, associated with Flp pilus assembly

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,485,716	0	A	G	100.0%	85.2 / NA	31	K167K (AAA→AAG)	unknown	Type II/IV secretion system protein TadC, associated with Flp pilus assembly
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (22/9);  total (22/9)

CTTTATTCATTTACTGATGAAACTACCGACAGTTCATCTCTGTTACTTGGCTTTCTAACTATATTAATAATAACTATTGTCATTCCTGGGGTTTTAATTGGTTCTATTTTGAAAGCTAAAATTAAAAAAATCATGAATGATTTAGCCGGATTCATTGATTTAGTAGCTGTTAATGTACAAACAGGGATAAGTATTGAGGCCGCACTAAAACAGGTTGCAACTGACTTTAAAACATTAAATCCTGATCTAACTTATGTTATGTTACGTATTATTCGTAAATCTGAAATTACTGGTATGTCACAAGCATTACAGGATCTCTCTGTGTCTTTACCAACAACGGAAATCAGGATGTTTTGCACTGTAATGCAGCAAAGTCTGAATTTTGGTTCCTCTATTTATCATCAATTAATTCAACTATCGACTGATATTAGAGAAATTCAATTATTAGCTAT  >  1/1485507‑1485958                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                   cTTTATTCACTTATTGATAAAACTACTGACAGCTCATCTCTGTTACTTGGCTTTCTAACTATATTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCtga                                                                                                                                                                                                            >  1:432260/1‑248 (MQ=255)          cttattgataaAACTACTGACAGCTCATCTCTGTTACTTGGCTTTCTAACTATATTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACttatgttat                                                                                                                                                                                                  >  1:527838/6‑251 (MQ=255)                         actgACAGCTCATCTCTGTTACTTGGCTTTCTAACTATATTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGt                                                                                                                                                                                           <  1:113262/240‑1 (MQ=255)                         actgACAGCTCATCTCTGTTACTTGGCTTTCTAACTATATTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCg                                                                                                                                                                                   >  1:205908/4‑251 (MQ=255)                                  tCATCTCTGTTACTTGGCTTTCTAACTATATTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAACATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATccga                                                                                                                                                                          >  1:694927/1‑248 (MQ=255)                                                             atatTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTaaaccc                                                                                                                                                                                                                    <  1:34736/182‑4 (MQ=255)                                                             atatTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTtatgttatgt                                                                                                                                                                                                >  1:578923/1‑202 (MQ=255)                                                             atatTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTtatgttatgt                                                                                                                                                                                                <  1:254665/202‑1 (MQ=255)                                                             atatTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTAc                                                                                                                                                                    <  1:70082/230‑1 (MQ=255)                                                              tatTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGCCTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAg                                                                                                                                              >  1:612008/1‑251 (MQ=255)                                                              tatTAATAGTAACTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACttatgt                                                                                                                                                                                                     <  1:341250/196‑1 (MQ=255)                                                                  aatagtaaCTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGtat                                                                                                                                                                                         >  1:662688/1‑204 (MQ=255)                                                                  aatagtaaCTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGAtc                                                                                                                                          <  1:44947/251‑1 (MQ=255)                                                                       taaCTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGAtctctc                                                                                                                                      >  1:795950/1‑250 (MQ=255)                                                                          cTATTGTTATTCCAGGAATTTTAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACttatgtta                                                                                                                                                                                                   >  1:320163/1‑186 (MQ=255)                                                                                           attttAATTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTaaaa                                                                                                                                                                                                                              <  1:31055/141‑1 (MQ=255)                                                                                                aaTTGGTTCTATTTTAAAATCCAAAATTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTaaaat                                                                                                                                                                                                                             >  1:259247/1‑137 (MQ=255)                                                                                                          attttaaaatccaaaaTTAAAAAAATCATGAATGATTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTc                                                                                                                                >  1:665696/13‑221 (MQ=255)                                                                                                                                            aTTTAGCAGGTTTCATTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGAtctc                                                                                                                                        >  1:251250/1‑179 (MQ=255)                                                                                                                                                          aTTGATTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTAATGCAACAAAGCCTTAATTTTGGTTCCTCTATTTAtcatca                                                  >  1:699177/1‑251 (MQ=255)                                                                                                                                                              aTTTAGTAGCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTAATGCAACAAAGCCTTAATTTTGGTTCCTCTATTTATCATCaacta                                              >  1:510932/1‑248 (MQ=255)                                                                                                                                                                 tagtagCTGTTAATTTACAAACGGGAATGGGTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTAcc                                                                                                                          >  1:350690/1‑172 (MQ=255)                                                                                                                                                                                      cgggaatgggTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTAATGCAACAAAGCCTTAATTTTGGTTCCTCTATTTATCATCaactagttc                                          >  1:158094/10‑224 (MQ=255)                                                                                                                                                                                               gTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATccgaga                                                                                                                                                                        <  1:276709/96‑6 (MQ=255)                                                                                                                                                                                               gTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGCTTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTaa                                                                                          >  1:526587/1‑174 (MQ=255)                                                                                                                                                                                               gTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGAtctctc                                                                                                                                      >  1:449317/1‑130 (MQ=255)                                                                                                                                                                                               gTATTGAAGCTGCGCTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTgtac                                                                                               <  1:842277/169‑4 (MQ=255)                                                                                                                                                                                                      agctgcgcTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTa                                                                                                                                                                                 >  1:271890/8‑80 (MQ=255)                                                                                                                                                                                                          gcgcTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTAATGCAACAAAGCCTTAATTTTGGTTCCTCTATTTATCATCAACTAGTTCAGCTATCGACTGATATTAGAGAAATTCAATTATTGGCtat  >  1:49593/4‑251 (MQ=255)                                                                                                                                                                                                          gcgcTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTAATGCAACAAAGCCTTAATTTTGGTTCCTCTATTTATCATCAACTAGTTCAGCTATCGACTGATATTAGAGAAATTCAATTATTGGCtat  >  1:723457/4‑251 (MQ=255)                                                                                                                                                                                                          gcgcTAAAGCACGTTGCAACTGACTTTAAAATATTAAACCCTGATCTGACTTATGTTATGTTACGTATTATTCGTAAATCCGAGATTACCGGTATGTCGCAGGCATTGCAGGATCTCTCTGTGTCTTTACCAACAGCAGAAATCCGAATGTTTTGTACTGTAATGCAACAAAGCCTTAATTTTGGTTCCTCTATTTATCATCAACTAGTTCAGCTATCGACTGATATTAGAGAAATTCAATTATTGGCtat  >  1:238065/4‑251 (MQ=255)                                                                                                                                                                                                                  |                                                                                                                                                                                                                                                   CTTTATTCATTTACTGATGAAACTACCGACAGTTCATCTCTGTTACTTGGCTTTCTAACTATATTAATAATAACTATTGTCATTCCTGGGGTTTTAATTGGTTCTATTTTGAAAGCTAAAATTAAAAAAATCATGAATGATTTAGCCGGATTCATTGATTTAGTAGCTGTTAATGTACAAACAGGGATAAGTATTGAGGCCGCACTAAAACAGGTTGCAACTGACTTTAAAACATTAAATCCTGATCTAACTTATGTTATGTTACGTATTATTCGTAAATCTGAAATTACTGGTATGTCACAAGCATTACAGGATCTCTCTGTGTCTTTACCAACAACGGAAATCAGGATGTTTTGCACTGTAATGCAGCAAAGTCTGAATTTTGGTTCCTCTATTTATCATCAATTAATTCAACTATCGACTGATATTAGAGAAATTCAATTATTAGCTAT  >  1/1485507‑1485958

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑