Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,655,245	(A)7→8	intergenic (‑104/+102)	rspA ← / ← ynfA	mandelate racemase/muconate lactonizing enzyme family protein RspA/conserved inner membrane protein YnfA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,655,238	1	.	A	100.0%	95.8 / NA	28	intergenic (‑97/+109)	rspA/ynfA	mandelate racemase/muconate lactonizing enzyme family protein RspA/conserved inner membrane protein YnfA
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base A (12/16);  total (12/16)

GCCCCGGACAGGTAACAAAAACTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGCCCGCAACA  >  NC_000913/1655099‑1655371                                                                                                                                             |                                                                                                                                      gCCCCGGACAGGTAACAAAAACTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATcac                                                                                                                                        >  1:163530/1‑140 (MQ=255)       gACAGGTAACAAAAACTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑aaaaaa                                                                                                                                 <  2:286364/140‑1 (MQ=255)             tAACAAAAACTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑aaaaaaaaggcg                                                                                                                           <  1:368187/140‑6 (MQ=255)             tAACAAAAACTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTAAGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑aaaaaaaaggcg                                                                                                                           <  2:319224/140‑6 (MQ=255)                      cTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTgc                                                                                                                   >  1:442186/1‑140 (MQ=255)                       ttCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTgcg                                                                                                                  <  1:101966/140‑1 (MQ=255)                       ttCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTgcg                                                                                                                  <  1:50719/140‑1 (MQ=255)                         cAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCt                                                                                                                >  2:17729/1‑140 (MQ=255)                              tttACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGaa                                                                                                           <  2:163530/140‑1 (MQ=255)                                tACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATg                                                                                                         >  2:238982/1‑140 (MQ=255)                                       ttCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACa                                                                                                  <  1:238982/140‑1 (MQ=255)                                            gTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGa                                                                                             <  2:442186/140‑1 (MQ=255)                                               cGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGa                                                                                          <  2:540092/140‑1 (MQ=255)                                                              cTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGa                                                                                          <  1:141442/125‑1 (MQ=255)                                                              cTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGa                                                                                          >  2:141442/1‑125 (MQ=255)                                                              cTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCtttt                                                                           >  1:372357/1‑140 (MQ=255)                                                                           aTGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGATTGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACt                                                              <  2:372357/140‑1 (MQ=255)                                                                            tGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGacac                                                               <  1:480489/138‑1 (MQ=255)                                                                            tGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGacac                                                               >  2:480489/1‑138 (MQ=255)                                                                                                  ctacCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAAt                                       >  2:423720/1‑140 (MQ=255)                                                                                                    acCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATgg                                     <  2:165010/140‑1 (MQ=255)                                                                                                        tACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGAttt                                 <  1:424896/140‑1 (MQ=255)                                                                                                               ataAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATaaa                                         <  1:453312/125‑1 (MQ=255)                                                                                                               ataAAGATCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATaaa                                         >  2:453312/1‑125 (MQ=255)                                                                                                                     aTCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGAt                                   >  1:44292/1‑125 (MQ=255)                                                                                                                     aTCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGAt                                   <  2:44292/125‑1 (MQ=255)                                                                                                                     aTCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTg                    >  2:153520/1‑140 (MQ=255)                                                                                                                     aTCGAAAAAAGCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTg                    >  1:272391/1‑140 (MQ=255)                                                                                                                               gCCGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGc          >  2:138766/1‑140 (MQ=255)                                                                                                                                ccGGAGTGATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGcc         <  2:287465/140‑1 (MQ=255)                                                                                                                                       gATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGCCCGcaaca  <  2:272391/140‑1 (MQ=255)                                                                                                                                       gATCACAAAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGCCCGcaaca  <  1:153520/140‑1 (MQ=255)                                                                                                                                             |                                                                                                                                      GCCCCGGACAGGTAACAAAAACTTCAGCCTTTACGATCTTCATGTTCGATTCCTTGCATCGCTTGTCGTGATGCATGAAATCTACGCAACTGAGCTACTACCATACAAGTATAAAGATCGAAAAAAGCCGGAGTGATCAC‑AAAAAAAGGCGTATATTTGCGCTGTGAATGGTTGACAAAAGATGAAATAGAATACCTTTTGTCAGCTGACACTTCCTCTTATCTTATTGATAAAATGGATTTATGTTCCTACGTGCGCCCCCAGCCCGCAACA  >  NC_000913/1655099‑1655371

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑