Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP009273	982,560	T→A	intergenic (‑122/+481)	ompF ← / ← asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP009273	982,560	0	T	A	100.0%	135.9 / NA	42	intergenic (‑122/+481)	ompF/asnS	outer membrane porin 1a (Ia;b;F)/asparaginyl tRNA synthetase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (23/19);  total (23/19)

AATATTGCGCTTCATCATTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTTCCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCATATTTCCATAGAGACGTGATGAT  >  CP009273/982421‑982698                                                                                                                                            |                                                                                                                                           aaTATTGCGGTTCATCATTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCAt                                                                                                                                        <  2:520431/144‑1 (MQ=255)     ttGCGCTTCTTCATTATTTATTCCCTCCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTaa                                                                                                                               <  1:283854/149‑1 (MQ=255)     ttGCGCTTCATCATTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAGTAAGTTCTGTCAATAAAAATTTACGACACTATTGATGAGAGCTTGGTGTCTTTATGTGTCTGCAGGAATCTTACCATTCaa                                                                                                                                    >  2:514582/1‑144 (MQ=255)      ggcgtctccccatAATTTATTACCCTCACGGTTTTTTTTATGATACCTGCCACTGCCGTCAATAAGTTCCGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGCCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAAc                                                                                                                              <  1:258000/139‑1 (MQ=255)         gcTTCATCATTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGtt                                                                                                                           <  1:195299/149‑1 (MQ=255)               tcatTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTa                                                                                                                     >  1:687143/1‑149 (MQ=255)                catTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTAc                                                                                                                    >  1:591561/1‑149 (MQ=255)                             ccTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTa                                                                                                       <  1:765016/149‑1 (MQ=255)                               tCATGGGTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGGGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCtcct                                                                                                     >  1:462586/1‑146 (MQ=255)                                cATGGTTTTTTTTATCACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGc                                                                                                         <  2:779087/144‑1 (MQ=255)                                             aTGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTg                                                                                       >  1:758894/1‑149 (MQ=255)                                                acacCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTCCAAAGATAAAGAtt                                                                                         >  2:284958/1‑144 (MQ=255)                                                   ccTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATATga                                                                                      >  2:250417/1‑143 (MQ=255)                                                           tGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAACGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGaaa                                                                         >  1:839718/1‑149 (MQ=255)                                                               gTCAATAAGTGCTGTCAATAAAAATTGACGGAACTATTGATGAGAGTTGGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGCTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAat                                                                     <  1:96328/149‑1 (MQ=255)                                                                   aTAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTAGCTATCCTTAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGt                                                                 >  1:259878/1‑149 (MQ=255)                                                                    tAAGTTCTGTCAATAAAAATTTACGGAACTATTGAGGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAat                                                                     >  2:675185/1‑144 (MQ=255)                                                                        ttCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGt                                                                 >  2:114623/1‑144 (MQ=255)                                                                          ccgTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCaaa                                                          <  1:337445/147‑1 (MQ=255)                                                                           tGTCAATAAAAATTTACGGAACTATTGATGAAAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACGGTGAAAGTGCTACAAAGATAAAGATTTGGATAAAAAAAAAAAAAATATGTAAc                                                              <  2:447339/144‑1 (MQ=255)                                                                            gTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAg                                                        >  1:792763/1‑149 (MQ=255)                                                                             tCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCa                                                            >  2:689046/1‑144 (MQ=255)                                                                              cAATAAAAATTTACGNAACCATTGATGCGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTGCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTCCAAAAAGAAAAAATATGTAACCAAAAGTa                                                      <  1:897870/149‑1 (MQ=255)                                                                               aaTAAAAATTTACGGATATATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCACTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTaa                                                     <  1:40760/149‑1 (MQ=255)                                                                                  aaaaaTTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGt                                                       >  2:223277/1‑144 (MQ=255)                                                                                      aatgaCGGAATCATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTaa                                              <  1:811599/145‑1 (MQ=255)                                                                                      aTTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAAAATGTAACCAAAAGTaaaa                                                   >  2:296588/1‑144 (MQ=255)                                                                                            ggAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAg                                             >  2:477175/1‑144 (MQ=255)                                                                                              aaCTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACttt                                      >  1:780094/1‑149 (MQ=255)                                                                                                   ttGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACttt                                      <  2:535754/144‑1 (MQ=255)                                                                                                       tgaGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGa                                  >  2:495174/1‑144 (MQ=255)                                                                                                        gagaGTTTAGAGTCGTTTAATGCCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGAGCTACAAAGAAAAAGATTTGGTTTCAAGAAGAACAAATATGAAACCAAAAGTAAAATTTAAGGAACTTTCTGaa                                 >  2:310195/1‑144 (MQ=255)                                                                                                          gagTATGGTGTCTTTATGTGTCGGCAGGCATATGACCATTCAAACCAACGTTTCTCTACTGTGAAAGTGCTACAAAGATAAAGATTTAAAAAAAAAAAAAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAaca                               <  2:347263/144‑1 (MQ=255)                                                                                                          gaatttGGTGTCTTTATGCGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGCGAAAGTGCTACAAAGATAAAGACTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTc                          <  1:794938/146‑1 (MQ=255)                                                                                                           agTTTGGTGTCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAacac                              >  2:87252/1‑144 (MQ=255)                                                                                                                 gtgtCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCat                        >  2:655516/1‑144 (MQ=255)                                                                                                                 gtgtCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCat                        >  2:682752/1‑144 (MQ=255)                                                                                                                   tgcttgatgctgcTGCAGTAATCCTACCACTCAAACAAACGTTTCGCTACCGTGAAACTCCTACAAAGATAAAGCTTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCatac                      <  2:488295/132‑2 (MQ=255)                                                                                                                   gtCTTTATGTGTCTGCAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTCAGGAACTTTGTGAACACCGTCATATTTCCa                 <  1:487029/149‑1 (MQ=255)                                                                                                                             gtCTGCAGGCATCTTACCATCCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGATAAAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCATATTTCCagagag            <  2:643116/144‑1 (MQ=255)                                                                                                                                  cAGGCATCTTACCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCATATTTCCATAGAGACGTgatgat  >  1:201651/1‑149 (MQ=255)                                                                                                                                     gCATCTTACCATTCAAACTAGCGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTACCCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCATATTTCCATAGAGACGtgatg    <  2:455952/144‑1 (MQ=255)                                                                                                                                            |                                                                                                                                           AATATTGCGCTTCATCATTATTTATTACCCTCATGGTTTTTTTTATGACACCTGCCACTGCCGTCAATAAGTTCTGTCAATAAAAATTTACGGAACTATTGATGAGAGTTTGGTGTCTTTATGTGTCTGCAGGCATCTTTCCATTCAAACTAACGTTTCGCTACCGTGAAAGTGCTACAAAGATAAAGATTTGGTTTCAAAAAGAAAAAATATGTAACCAAAAGTAAAATTTAAGGAACTTTGTGAACACCGTCATATTTCCATAGAGACGTGATGAT  >  CP009273/982421‑982698

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑