Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,270,545	G→T	intergenic (+85/+204)	rdlC → / ← chaA	small regulatory antisense RNA RdlC/Na(+)/K(+):H(+) antiporter ChaA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,270,545	0	G	T	100.0%	162.8 / NA	50	intergenic (+85/+204)	rdlC/chaA	small regulatory antisense RNA RdlC/Na(+)/K(+):H(+) antiporter ChaA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (19/31);  total (19/31)

CCCCGCAACATTGCGCCTCACCGGATAACGCCGGCTTGGTGTGGATACTACGTCGCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAGGTAGTA  >  NC_000913/1270491‑1270679                                                       |                                                                                                                                       ccccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCa                                                   <  1:1276380/140‑1 (MQ=12) ccccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCa                                                   <  1:921496/140‑1 (MQ=12) ccccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCa                                                   >  1:809586/1‑140 (MQ=0)  cccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAg                                                  >  2:1001629/1‑140 (MQ=12)   ccGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAgg                                                 >  1:608296/1‑140 (MQ=9)    cGCAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAggg                                                <  1:54380/140‑1 (MQ=255)      cAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGgtg                                              <  1:1001629/140‑1 (MQ=255)      cAACATTGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTCCAGTGGTTTCGTGCAGGgtg                                              <  1:247400/140‑1 (MQ=255)            tGCGCCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTAc                                        >  2:198817/1‑140 (MQ=255)            tGCGCCTCACCGGATAATTCAGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTAc                                        >  1:1191542/1‑140 (MQ=14)              cgcCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAg                                      <  2:672664/140‑1 (MQ=255)               gcCTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAgg                                     >  1:27879/1‑140 (MQ=255)                ccTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGc                                    >  1:1438721/1‑140 (MQ=255)                 cTCACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCt                                   <  2:608296/140‑1 (MQ=255)                   cACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCg                                 >  1:10496/1‑140 (MQ=255)                   cACCGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCg                                 <  1:198817/140‑1 (MQ=255)                     ccGGATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCa                               >  2:1225801/1‑140 (MQ=255)                        gataattccGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAAtt                            >  2:1203302/8‑140 (MQ=255)                        gATAATTCCGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAAtt                            <  1:1203302/140‑1 (MQ=255)                         ataattccGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTc                           <  2:809586/134‑1 (MQ=255)                              tccGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCt                          <  2:621362/135‑1 (MQ=255)                              tccGGCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCt                          >  1:621362/2‑136 (MQ=255)                                  gCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACg                  >  2:404900/1‑140 (MQ=255)                                  gCTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACg                  >  1:838313/1‑140 (MQ=255)                                   cTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGa                 <  2:403033/140‑1 (MQ=255)                                   cTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGa                 <  1:1429405/140‑1 (MQ=255)                                   cTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGa                 <  2:734318/140‑1 (MQ=255)                                   cTTGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGa                 <  2:113989/140‑1 (MQ=255)                                    ttGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAc                <  1:922522/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGGTCGCAATTCTGATTAACGAcc               <  2:27879/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:152355/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:1337705/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  2:1438721/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:1400379/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:976656/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:878417/140‑1 (MQ=255)                                     tGGTGTGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:1450959/140‑1 (MQ=255)                                       gtgtGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               >  2:1133062/1‑138 (MQ=255)                                       gtgtGGATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGAcc               <  1:1133062/138‑1 (MQ=255)                                            gATACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAg        <  1:365034/140‑1 (MQ=255)                                             aTACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAgg       <  2:10496/140‑1 (MQ=255)                                             aTACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAgg       >  2:746729/1‑140 (MQ=255)                                             aTACTACGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAgg       <  1:410344/140‑1 (MQ=255)                                              tactacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAGgt      >  2:971191/1‑140 (MQ=255)                                                 tacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGa                 >  1:1402760/1‑126 (MQ=255)                                                 tacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGa                 <  2:1402760/126‑1 (MQ=255)                                                 tacGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAGgtagt   >  2:740247/1‑140 (MQ=255)                                                  acGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAGgtagta  >  1:1446467/1‑140 (MQ=255)                                                  acGTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAGgtagta  <  1:971191/140‑1 (MQ=255)                                                    gTCTCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCACAATTCTGATTAACGa                 <  2:659394/123‑1 (MQ=255)                                                       |                                                                                                                                       CCCCGCAACATTGCGCCTCACCGGATAACGCCGGCTTGGTGTGGATACTACGTCGCAATTCATCTTCACTTCATCCCTGAAATGTTTGCAATGAAGAGTACATTCCGGCTTTTCAACAGCTGTTGCAGTGGTTTCGTGCAGGGTGTGGTACAGGCTCGCAATTCTGATTAACGACCTGTCCAGGTAGTA  >  NC_000913/1270491‑1270679

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: ‑