Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	986,267	C→T	G239D (GGT→GAT)	ompF ←	outer membrane porin 1a (Ia,b,F)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	986,267	0	C	T	100.0%	168.8 / NA	48	G239D (GGT→GAT)	ompF	outer membrane porin 1a (Ia,b,F)
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/20);  total (28/20)

CGCAACTAACAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGACCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAGCCTTCGTATTCGTAGCTGATAGAACCGCCAACA  >  NC_000913/986134‑986398                                                                                                                                      |                                                                                                                                    cgcAACTAACAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTCGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAg                                                                                                                                  <  2:1076060/137‑1 (MQ=255) cgcAACTAACAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAg                                                                                                                                  >  1:1076060/1‑137 (MQ=255)   cAACTAACAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGc                                                                                                                              >  2:1426621/1‑139 (MQ=255)      cTAACAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCa                                                                                                                           >  1:617927/1‑139 (MQ=255)         aCAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTg                                                                                                                        >  2:1112009/1‑139 (MQ=255)            gAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTc                                                                                                                     <  1:216243/139‑1 (MQ=255)                gTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCt                                                                                                                 >  2:786213/1‑139 (MQ=255)                  cTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCttt                                                                                                               >  2:292988/1‑139 (MQ=255)                  cTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCttt                                                                                                               >  2:1228326/1‑139 (MQ=255)                  cTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGACGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCttt                                                                                                               >  2:969807/1‑139 (MQ=255)                          ttgttgGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGt                                                                                                       <  2:920836/139‑1 (MQ=255)                            gttgGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTg                                                                                                     >  1:268249/1‑139 (MQ=255)                                 cGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAag                                                                                                <  1:377116/139‑1 (MQ=255)                                      ccGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGtt                                                                                           <  2:72432/139‑1 (MQ=255)                                                            taGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACg                                                                     <  1:292988/139‑1 (MQ=255)                                                            taGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACg                                                                     <  1:415991/139‑1 (MQ=255)                                                                 aTCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCa                                                                                                  <  2:384773/105‑1 (MQ=255)                                                                 aTCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCa                                                                                                  >  1:384773/1‑105 (MQ=255)                                                                         aGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCa                                                        >  2:774248/1‑139 (MQ=255)                                                                           cGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATa                                                      >  1:1150688/1‑139 (MQ=255)                                                                                cGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCt                                                              >  2:1492205/1‑126 (MQ=255)                                                                                cGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCt                                                              <  1:1492205/126‑1 (MQ=255)                                                                                cGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCAc                                                 >  1:368829/1‑139 (MQ=255)                                                                                cGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCAc                                                 >  1:320538/1‑139 (MQ=255)                                                                                cGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCAc                                                 <  1:1112009/139‑1 (MQ=255)                                                                                cGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCAc                                                 >  2:1439700/1‑139 (MQ=255)                                                                                     ttCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACg                                            <  2:268249/139‑1 (MQ=255)                                                                                           gTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCa                                      >  2:739309/1‑139 (MQ=255)                                                                                           gTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCa                                      <  1:774248/139‑1 (MQ=255)                                                                                              gTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAg                                   >  1:1392196/1‑139 (MQ=255)                                                                                                 cGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAGCCt                                >  1:1303003/1‑139 (MQ=255)                                                                                                                  tgttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCa                                                                               <  1:1066500/75‑1 (MQ=255)                                                                                                                  tgttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCa                                                                               >  2:1066500/1‑75 (MQ=255)                                                                                                                   gttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGct                                                                                      <  2:1105582/67‑1 (MQ=255)                                                                                                                   gttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGct                                                                                      >  1:1105582/1‑67 (MQ=255)                                                                                                                   gttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAGCCTTCGTATTCGTAGCTGATa              >  1:116150/1‑139 (MQ=255)                                                                                                                    ttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCAcc                                                         >  2:308638/1‑95 (MQ=255)                                                                                                                    ttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCAcc                                                         <  1:308638/95‑1 (MQ=255)                                                                                                                    ttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATAc                                        >  2:758094/1‑112 (MQ=255)                                                                                                                    ttCGCGTCGTACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATAc                                        <  1:758094/112‑1 (MQ=255)                                                                                                                        cgtcgtACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAaga                                                                                               >  1:1411834/1‑53 (MQ=255)                                                                                                                        cgtcgtACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAaga                                                                                               <  2:1411834/53‑1 (MQ=255)                                                                                                                        cgtcgtACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGc                                                            <  2:368734/88‑1 (MQ=255)                                                                                                                        cgtcgtACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGc                                                            >  1:368734/1‑88 (MQ=255)                                                                                                                        cgtcgtACTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAGCCTTCGTATTCGTAGCTGATAGAAcc         >  1:529907/1‑139 (MQ=255)                                                                                                                              aCTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAg                                                                >  1:629784/1‑78 (MQ=255)                                                                                                                              aCTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAg                                                                <  2:629784/78‑1 (MQ=255)                                                                                                                               cTTCAGATCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAGCCTTCGTATTCGTAGCTGATAGAACCGCCAaca  <  1:739309/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                                    CGCAACTAACAGAACGTCTTGCGTTTTGTTGGCGAAGCCGCTGGTGTTTGTAAATTTATTAGTGATCGGCGTAGCGTTACGGGTTTCACCGTAGTTCGCTGCCAGGTAGATGTTGTTCGCGTCGTACTTCAGACCAGTAGCCCACTGTTCAGCTTTTTTACCGTTGCCAAGAGGTTGAGCTTCTTGCAGGTTGGTACGGTCAGCTGCACCATAAGCACCAACGATACCAAAGCCTTCGTATTCGTAGCTGATAGAACCGCCAACA  >  NC_000913/986134‑986398

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑