Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	REL606	1,290,249	Δ1 bp	coding (214/1014 nt)	hnr →	response regulator of RpoS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	REL606	1,290,249	0	C	.	100.0%	166.5 / NA	34	coding (214/1014 nt)	hnr	response regulator of RpoS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (11/23);  total (11/23)

GGTTTCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAGCATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGATATT  >  REL606/1290180‑1290317                                                                      |                                                                     ggTTTCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACg                                                               <  2:1104481/76‑1 (MQ=255) ggTTTCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACg                                                               >  1:688832/1‑76 (MQ=255)  gTTTCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGt                                                              >  1:955130/1‑76 (MQ=255)   tttCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTa                                                             <  2:918927/76‑1 (MQ=255)    ttCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTaa                                                            <  2:865450/76‑1 (MQ=255)       aCTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACag                                                         >  1:627764/1‑76 (MQ=255)       aCTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACag                                                         <  1:449640/76‑1 (MQ=255)                cTGATGATATGTGANATCGCGATGCCACGAATGANCGGGCGTANACTGCTGGAG‑ATATACGTAACAGAGGCGACCa                                                <  2:1265115/76‑1 (MQ=255)                 tgatgaTATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAg                                               >  1:1172425/1‑76 (MQ=255)                  gatgatATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGa                                              >  1:1286216/1‑76 (MQ=255)                   atgatATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGAc                                             >  2:541882/1‑76 (MQ=255)                         tgtgATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGt                                       >  1:826285/1‑76 (MQ=255)                               atCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGt                                 <  1:1028306/76‑1 (MQ=255)                               atCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGt                                 <  1:119695/76‑1 (MQ=255)                                 cgcgATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGa                               <  1:924285/76‑1 (MQ=255)                                   cgATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGANCCCAGTTCTGGt                                 <  1:17727/72‑1 (MQ=255)                                   cgATGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGt                                 >  2:17727/1‑72 (MQ=255)                                    gATGCCACGAATGAACGGGCTTAAACTGCTGGA‑NATATACGTAACAGAGGCGACCANACCCCAGTCCNGGTGatat                            >  2:1274961/1‑76 (MQ=255)                                      tGCCACGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCt                          <  1:121945/76‑1 (MQ=255)                                          aCGAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCa                      <  1:1239644/76‑1 (MQ=255)                                            gAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACt                    <  1:980043/76‑1 (MQ=255)                                            gAATGAACGGGCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACt                    <  1:1175271/76‑1 (MQ=255)                                                     ggCTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATg           <  1:737432/76‑1 (MQ=255)                                                      gCTTAAACTGCTNGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATgg          >  1:15690/1‑76 (MQ=255)                                                       cTTAAACTGCTGGAG‑ATCTACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGc         <  1:169062/76‑1 (MQ=255)                                                       cTTAAACTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGc         >  1:1132696/1‑76 (MQ=255)                                                         tAAACTACTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGCTGATATCTGCCACTGAAAATATGGCAg       <  1:1505161/76‑1 (MQ=255)                                                          aaaCTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGa      >  2:669897/1‑76 (MQ=255)                                                            aCTGCTGGAG‑ATATATGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGata    <  2:55458/76‑1 (MQ=255)                                                            aCTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGata    <  2:1359074/76‑1 (MQ=255)                                                            aCTGCTGGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGata    <  1:1182232/76‑1 (MQ=255)                                                             ctgctgGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGatat   <  1:894719/76‑1 (MQ=255)                                                             ctgctgGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGatat   <  2:610336/76‑1 (MQ=255)                                                              tgctgGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGATAtt  <  1:780663/76‑1 (MQ=255)                                                              tgctgGAG‑ATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGATAtt  <  2:739643/76‑1 (MQ=255)                                                                      |                                                                     GGTTTCACTCCAGACCTGATGATATGTGATATCGCGATGCCACGAATGAACGGGCTTAAACTGCTGGAGCATATACGTAACAGAGGCGACCAGACCCCAGTTCTGGTGATATCTGCCACTGAAAATATGGCAGATATT  >  REL606/1290180‑1290317

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑