Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	401,548	(G)5→4	coding (163/261 nt)	iraP →	anti‑RssB factor, RpoS stabilzer during Pi starvation, anti‑adapter protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	401,544	0	G	.	100.0%	152.6 / NA	37	coding (159/261 nt)	iraP	anti‑RssB factor, RpoS stabilzer during Pi starvation, anti‑adapter protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (21/16);  total (21/16)

GTTATTTAAGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAGGGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAGTAAAAAGT  >  NC_000913/401409‑401651                                                                                                                                        |                                                                                                            gttATTTAAGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAgggg                                                                                                          <  1:222839/139‑1 (MQ=255)  ttATTTAAGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggc                                                                                                         <  1:823120/139‑2 (MQ=255)  ttATTTAAGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggc                                                                                                         >  1:1145686/1‑138 (MQ=255)   tATTTAAGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggcg                                                                                                        <  1:574140/139‑3 (MQ=255)         aGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTAc                                                                                                 >  2:1220596/1‑139 (MQ=255)               cccAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTa                                                                                           >  2:588349/1‑139 (MQ=255)               cccAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTa                                                                                           >  1:163805/1‑139 (MQ=255)                       gaagaagaGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGa                                                                                   <  2:163805/139‑1 (MQ=255)                                tCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCAt                                                                          >  2:996070/1‑139 (MQ=255)                                  gAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTc                                                                        >  2:974745/1‑139 (MQ=255)                                         cTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTgacga                                                                 <  2:1145686/139‑1 (MQ=255)                                                 gcAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTa                                                                                           >  2:158238/1‑105 (MQ=255)                                                 gcAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTa                                                                                           <  1:158238/105‑1 (MQ=255)                                                  cAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGa                                                        >  2:829031/1‑139 (MQ=255)                                                      tAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAgctg                                                    >  2:489137/1‑139 (MQ=255)                                                              ttGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGa                                            <  1:489137/139‑1 (MQ=255)                                                                ggAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGAtt                                          <  1:1220596/139‑1 (MQ=255)                                                                ggAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGAtt                                          <  1:588349/139‑1 (MQ=255)                                                                      tATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTgcg                                               >  2:1128798/1‑128 (MQ=255)                                                                      tATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTgcg                                               <  1:1128798/128‑1 (MQ=255)                                                                       aTCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTaaa                                   <  1:996070/139‑1 (MQ=255)                                                                                   aTGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggcg                                                                                                        >  1:1113980/1‑57 (MQ=255)                                                                                   aTGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggcg                                                                                                        <  2:1113980/59‑3 (MQ=255)                                                                                   aTGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTgcg                                               <  1:1275710/115‑1 (MQ=255)                                                                                   aTGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTgcg                                               >  2:1275710/1‑115 (MQ=255)                                                                                   aTGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGaa                       >  2:1232469/1‑139 (MQ=255)                                                                                    tGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggcg                                                                                                        >  2:134547/1‑56 (MQ=255)                                                                                    tGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAggggcg                                                                                                        <  1:134547/58‑3 (MQ=255)                                                                                    tGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATa                                                            <  1:581650/101‑1 (MQ=255)                                                                                    tGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATa                                                            >  2:581650/1‑101 (MQ=255)                                                                                      cTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAaaga                                 <  1:204702/126‑1 (MQ=255)                                                                                      cTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAaaga                                 >  2:204702/1‑126 (MQ=255)                                                                                       ttCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATa                                                            <  1:1299697/98‑1 (MQ=255)                                                                                       ttCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATa                                                            >  2:1299697/1‑98 (MQ=255)                                                                                           cAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAg                                                                             <  2:80071/77‑1 (MQ=255)                                                                                           cAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAg                                                                             >  1:80071/1‑77 (MQ=255)                                                                                           cAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGaa                       >  2:1329203/1‑131 (MQ=255)                                                                                           cAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGaa                       <  1:1329203/131‑1 (MQ=255)                                                                                                tGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAg          >  1:702590/1‑139 (MQ=255)                                                                                                 ggCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAGt         >  2:1244529/1‑139 (MQ=255)                                                                                                   cgcAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGa                                            <  2:837698/102‑1 (MQ=255)                                                                                                   cgcAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGa                                            >  1:837698/1‑102 (MQ=255)                                                                                                   cgcAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAGTaa       >  1:1424764/1‑139 (MQ=255)                                                                                                   cgcAAAATGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAGTaa       >  1:937104/1‑139 (MQ=255)                                                                                                        aaTGACCAACAGCGGTTGATTGATCAGGTAGA‑GGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAGTAAAAAGt  <  1:1232469/139‑1 (MQ=255)                                                                                                                                        |                                                                                                            GTTATTTAAGCTTGCCCAAAAAGAAGAAGAGTCGAAAGAACTGTGTGCGCAGGTAGAAGCTTTGGAGATTATCGTCACTGCAATGCTTCGCAATATGGCGCAAAATGACCAACAGCGGTTGATTGATCAGGTAGAGGGGGCGCTGTACGAGGTAAAGCCCGATGCCAGCATTCCTGACGACGATACGGAGCTGCTGCGCGATTACGTAAAGAAGTTATTGAAGCATCCTCGTCAGTAAAAAGT  >  NC_000913/401409‑401651

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑