Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,546,272	A→C	T393P (ACC→CCC)	fimD →	type I fimbriae usher protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,546,272	0	A	C	95.8%	62.1 / NA	24	T393P (ACC→CCC)	fimD	type I fimbriae usher protein
Reads supporting (aligned to +/- strand):  ref base A (1/0);  new base C (11/12);  total (12/12)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACTATTAAACAAAATGGGTATGACATTTATAATAGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAAACCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATGACGGACAATCGGTGCGTTTTCTCTATAACAAATCGCTCAATGAATCAGGCA  >  NC_000913/4546029‑4546509                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                              aCTATTAAACACACTGGGTATGACATTTATAATAGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCCGGAAAAACCCCGCtt                                                                                                                                                                                                                                        >  2:194501/1‑251 (MQ=255)          cAAAATGGGAATGACATTTATAATAGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTACCGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGCAAATACCATAGTGGAAATACGCCACAGGAAAAAACCCGCCTTTTACag                                                                                                                                                                                                                                 >  2:215299/1‑249 (MQ=255)                  gTATGACATTTATAATAGTACGGTGCCACCGGGGCCTCTTACCATCAACGATATCTATGCCGCAGGTCATAGTGGTGACTTGCAGGTAACGATCTAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTAGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGGAATGCTCAGCAGGAAAAACCCAGCTTTTTCCagaggaccgtat                                                                                                                                                                                                                       >  2:3642/1‑243 (MQ=255)                       acgtttATAATAGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCAc                                                                                                                                                                                                                  <  2:198604/248‑1 (MQ=255)                        cATTTATAATAGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACg                                                                                                                                                                                                                 <  1:154928/251‑1 (MQ=255)                             ataataGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCtt                                                                                                                                                                                                            >  2:168209/1‑251 (MQ=255)                                     aCGGTTCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTTCCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTGTTCCAGAGTACATTACTCCACGGCCTTCCggctg                                                                                                                                                                                                     <  1:219323/250‑1 (MQ=255)                                            cACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGAcc                                                                                                                                                                                             >  1:65208/1‑250 (MQ=255)                                                                      atCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCGTACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCgg                                                                                                                                                                    <  1:61154/250‑1 (MQ=255)                                                                            gCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCGGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGATATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACGCCACGGCCTGCCGGCTTGCTGGACAATATATGGTGGAACGCAACTGGCGGAGCGTTa                                                                                                                                                             <  2:156500/251‑1 (MQ=255)                                                                                                                        tGACGGCAGCCCGCAGATTTTTCCCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGAGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGAGGAACGCAACTGGCGGATCGTTCTCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTgg                                                                                                                 >  1:68752/1‑251 (MQ=255)                                                                                                                               agcaCGGAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGctct                                                                                                          <  2:65208/251‑1 (MQ=255)                                                                                                                                          ttttACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCATGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCTCTTTTTCCAGAGTACATTACTCCACGTCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGTCGGAGCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGat                                                                                                <  1:168820/250‑1 (MQ=255)                                                                                                                                                  tACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGc                                                                                         >  1:34615/1‑249 (MQ=255)                                                                                                                                                                    cGCTTTTGCAACGTGAAGGGCATACTCGGTATTCAATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTTCAGAGTACATTACTCCACGGTTTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACtgc                                                                       <  2:220475/249‑3 (MQ=255)                                                                                                                                                                      cTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGACTACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTCCTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATTGCGCAGGCTAATTCCACCCTTCCCg                                                                    >  2:181239/1‑250 (MQ=255)                                                                                                                                                                                   aaGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCt                                                                                                                                                      >  1:74746/1‑155 (MQ=255)                                                                                                                                                                                   aaGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCt                                                                                                                                                      <  2:74746/155‑1 (MQ=255)                                                                                                                                                                                                                    aaTACCGTATTGGAAATGCGAAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGAGCGTTATCGTGCTTTTAATTTCGGTAGCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATGACGGACAATCGGTGCGTTTTCTCTATAACaaa                     <  2:68752/251‑1 (MQ=255)                                                                                                                                                                                                                               ggAAATGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATGACGGACAATCGGTGCGTTTTCTCTATAACAAATCGCTCAATGa          <  1:206476/251‑1 (MQ=255)                                                                                                                                                                                                                                   aTGCGCAGCAGGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATGACGGACAATCGGTGCGTTTTCTCTATAACAAATCGCTCAATGAATc       >  1:12895/1‑250 (MQ=255)                                                                                                                                                                                                                                         agcagAAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTACAGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTACCCACTTCCCGAAGACATTCAGCATGACGGACAATCGGTGCGTTTTCTCTATAACAAATAGCTCAATGAATCAGGCa  >  2:192340/1‑249 (MQ=255)                                                                                                                                                                                                                                            agGAAAAACCCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATg                                                     >  1:97083/1‑195 (MQ=255)                                                                                                                                                                                                                                            agGAAAAACCCCGCTTTGTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATg                                                     <  2:97083/195‑1 (MQ=255)                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                              ACTATTAAACAAAATGGGTATGACATTTATAATAGTACGGTGCCACCGGGGCCTTTTACCATCAACGATATCTATGCCGCAGGTAATAGTGGTGACTTGCAGGTAACGATCAAAGAGGCTGACGGCAGCACGCAGATTTTTACCGTACCCTATTCGTCAGTCCCGCTTTTGCAACGTGAAGGGCATACTCGTTATTCCATTACGGCAGGAGAATACCGTAGTGGAAATGCGCAGCAGGAAAAAACCCGCTTTTTCCAGAGTACATTACTCCACGGCCTTCCGGCTGGCTGGACAATATATGGTGGAACGCAACTGGCGGATCGTTATCGTGCTTTTAATTTCGGTATCGGGAAAAACATGGGGGCACTGGGCGCTCTGTCTGTGGATATGACGCAGGCTAATTCCACACTTCCCGATGACAGTCAGCATGACGGACAATCGGTGCGTTTTCTCTATAACAAATCGCTCAATGAATCAGGCA  >  NC_000913/4546029‑4546509

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑