Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,540,431	T→C	intergenic (‑930/‑526)	nanC ← / → fimB	N‑acetylneuraminate outer membrane channel/Type 1 fimbriae regulatory protein FimB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,540,431	0	T	C	100.0%	58.3 / NA	19	intergenic (‑930/‑526)	nanC/fimB	N‑acetylneuraminate outer membrane channel/Type 1 fimbriae regulatory protein FimB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (10/9);  total (10/9)

CATCATGAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCTAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTGAGACGGCTAGTTGAACGAATATTAAATTTTGCTGAATTTTTTATGTTGATTTTACTTGTTACAGAACATATCACATGATAT  >  NC_000913/4540203‑4540676                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                      catcatGAAATATGATTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGATGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAACGGAATGTAACa                                                                                                                                                                                                                                  >  1:216956/1‑250 (MQ=255)    catGAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGGTCTGGAGAGGCTTGTTGGTGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCCGGATAAAAAGGGATGTAAAAAtct                                                                                                                                                                                                                              >  2:173762/1‑251 (MQ=255)     atGAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAAtctc                                                                                                                                                                                                                             >  1:102963/1‑251 (MQ=255)         aaTATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATAGCTCCAGGATAAAAAGGAATGTAACAATCTCATgg                                                                                                                                                                                                                         <  1:203532/251‑1 (MQ=255)          atatGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGc                                                                                                                                                                                                                        <  1:202858/251‑1 (MQ=255)                       tttGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTTGTTTGTTTGCCGTCTCGCCCGGCGAATGGCTGTGATTGAGGGAGGTTTAAGTCGTAGGGACCAAAGCTATATTTACCCACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGa                                                                                                                                                                                                            >  1:101202/1‑250 (MQ=255)                                tGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCAGGGCGTAAGCTGACGAATcagcag                                                                                                                                                                                                    <  2:101202/249‑1 (MQ=255)                                                                                       cAGGATGATGTTTCACTTAGTTTGGTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTgc                                                                                                                                           <  1:146748/251‑1 (MQ=255)                                                                                             gatgTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTcc                                                                                                                                      <  1:206394/250‑1 (MQ=255)                                                                                                                                     ggCTGTGCTTGAGGAAGGTTTACGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGCCGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCAAGATAATAGCCACTAAGAAATTACTGCGCTCCATGACATAGCCATTTTGTGGCAAATGGAGTTGACTaataat                                                                                             >  2:241154/1‑251 (MQ=255)                                                                                                                                          tgATTGAGGAATGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAAGGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGTACCTAAGAATTAGCATTATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATggca                                                                                         <  2:33192/250‑4 (MQ=255)                                                                                                                                                aGGAAGGTTTAAGTCGTAGTGAACAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATAtgtg                                                                                   >  1:49904/1‑250 (MQ=255)                                                                                                                                                 ggAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAATAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTgag                                                                                 <  1:142135/251‑1 (MQ=255)                                                                                                                                                                      tcAAAGCTATATTTACCAACGAATGGAGATGAAAAAATCATCTCCTGCGTTACCCCATATCTCCAGGATAAAAAGGAATGAAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGTACCTAAGAACTAGAATGATAATAGACACTAAGAAATTACGGCGCTCCATGAAATAGTCATTTTGTGGCAAATGGAGTTCACTAATACTGACATATGTGAGATGGCTAGTTATACGAatat                                                             >  2:150105/2‑250 (MQ=255)                                                                                                                                                                                   tACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTGAGACGGCTAGTTGAACGAATATTAAATTTTGCTGa                                                <  1:51437/250‑1 (MQ=255)                                                                                                                                                                                       aaCGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGCCGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTGAGACGGCTAGTTGAACGAATATTAAATTTTGCTGAAtttt                                           >  1:171928/1‑251 (MQ=255)                                                                                                                                                                                                       aaaaTCATCTCCTGCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTACCAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGACCCTAAGAATTACCATGATAATAAACACTAAGAAATTACTGCGCTCCATGAACTAGCCATTTTGTGGCAAATGGAGTTGACTAATCATGTCATATGTGAGGAGACTAGTTGAACGAATATTAAATTTTGCTGAATTTTTTATGTTGATTTTaat                           >  1:158847/1‑249 (MQ=255)                                                                                                                                                                                                                    gCGTTCCCCCATATCTCCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTGAGACGGCTAGTTGAACGAATATTAAATTTTGCTGAATTTTTTATGTTGATTTTACTTGTTACATAACat              <  2:81837/251‑1 (MQ=255)                                                                                                                                                                                                                                 tctcCAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTGAGACGGCTAGTTGAACGAATATTAAATTTTGCTGAATTTTTTATGTTGATTTTACTTGTTACAGAACATATCACATGatat  >  1:52446/1‑250 (MQ=255)                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                                      CATCATGAAATATGTTTCCTGGTTTGTGGCTTGTAACTGGTCACTTCTGAAGTCGATCTGGAGAGGCTTGTTGATGTTGGTGTTTTCAGGATGATGTTTCACTTAGTTTGTTTGCCGTATCGCCCGGCGAATGGCTGTGATTGAGGAAGGTTTAAGTCGTAGTGACCAAAGCTATATTTACCAACGAATGTAGATGAAAAAATCATCTCCTGCGTTCCCCCATATCTCTAGGATAAAAAGGAATGTAACAATCTCATGGCGTAAGCTGACGAATCAGCAGGAATAATCGCTAGGGACCTAAGAATTAGCATGATAATAGCCACTAAGAAATTACTGCGCTCCATGAAATAGCCATTTTGTGGCAAATGGAGTTGACTAATAATGTCATATGTGAGACGGCTAGTTGAACGAATATTAAATTTTGCTGAATTTTTTATGTTGATTTTACTTGTTACAGAACATATCACATGATAT  >  NC_000913/4540203‑4540676

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑