Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	REL606	3,146,135	T→G	I91S (ATC→AGC)	rpoD →	RNA polymerase sigma factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	REL606	3,146,135	0	T	G	100.0%	158.8 / NA	40	I91S (ATC→AGC)	rpoD	RNA polymerase sigma factor
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (8/32);  total (8/32)

TGAAAACACCGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAATCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGG  >  REL606/3146067‑3146207                                                                     |                                                                         tgAAAACACCGCGGCCGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGgcgc                                                                   <  2:592242/76‑1 (MQ=255) tgAAAACACCGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGgcgc                                                                   <  2:592253/76‑1 (MQ=255) tgAAAACACCGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGgcgc                                                                   <  2:592249/76‑1 (MQ=255)    aaaCACCGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACg                                                                >  1:386428/1‑76 (MQ=255)     aaCACCGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGa                                                               >  2:618812/1‑76 (MQ=255)       cacCGCGGACGAAGATGCTGCCGAAGCCGCGGCGCAGATGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACt                                                             <  1:1114827/76‑1 (MQ=255)        cccGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTg                                                            <  1:175081/75‑1 (MQ=255)        cccGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTg                                                            <  1:257059/75‑1 (MQ=255)          cccgGAAGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGAc                                                          <  1:988982/74‑1 (MQ=255)             ggACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCg                                                       <  1:1100430/76‑1 (MQ=255)             ggACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCg                                                       <  1:887964/76‑1 (MQ=255)             ggACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGAACGACTGACCCg                                                       >  1:770464/1‑76 (MQ=255)               aCGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGt                                                     <  1:952220/76‑1 (MQ=255)                  aaGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACg                                                  <  2:694410/76‑1 (MQ=255)                    gATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTTGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCa                                                <  1:248783/76‑1 (MQ=255)                     aTGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCAt                                               <  1:471472/76‑1 (MQ=255)                       gctgcCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGt                                             <  1:315413/76‑1 (MQ=255)                        ctgcCGAAGCCTCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTa                                            <  2:469754/76‑1 (MQ=255)                        ctgcCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTa                                            <  2:93351/76‑1 (MQ=255)                                gccgccGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTg                                    <  1:384888/76‑1 (MQ=255)                                gccgccGCGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTg                                    <  2:829952/76‑1 (MQ=255)                                  cgccgcGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGaa                                  <  2:671309/76‑1 (MQ=255)                                    ccgcGCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAAt                                <  1:86763/76‑1 (MQ=255)                                     cgcgCAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATg                               >  1:995228/1‑76 (MQ=255)                                       cgcAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATggg                             <  1:241812/76‑1 (MQ=255)                                       cgcAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATggg                             <  2:997486/76‑1 (MQ=255)                                       cgcAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATggg                             >  1:292780/1‑76 (MQ=255)                                        gcAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGc                            <  2:974187/76‑1 (MQ=255)                                         cAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCa                           <  2:590456/76‑1 (MQ=255)                                         cAGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCa                           <  2:1076283/76‑1 (MQ=255)                                          aGGTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCAc                          <  1:795251/76‑1 (MQ=255)                                            gTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCg                        <  2:543158/76‑1 (MQ=255)                                            gTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCg                        <  2:316933/76‑1 (MQ=255)                                            gTGCTTTCCAGCGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCg                        <  1:605484/76‑1 (MQ=255)                                                      gCGTGGAATCTGAAAGCGGTCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGtt              <  2:535716/76‑1 (MQ=255)                                                       cGTGGAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTg             <  1:1137835/76‑1 (MQ=255)                                                         tGGAATCTGAAAGCGGGCGCACGACTGACCCGTTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTGAc           <  1:192651/76‑1 (MQ=255)                                                          ggAATCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGAACATGCGTGATATGCGCACCGTTGAACTGCTGccc          >  2:406110/1‑76 (MQ=255)                                                             aTCTGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTGACCcgc       <  1:464826/76‑1 (MQ=255)                                                                tGAAAGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTGACCCGCGaa    >  2:433404/1‑76 (MQ=255)                                                                  aaaGCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTGACCAGCGAAgg  >  2:1119574/1‑76 (MQ=255)                                                                     |                                                                         TGAAAACACCGCGGACGAAGATGCTGCCGAAGCCGCCGCGCAGGTGCTTTCCAGCGTGGAATCTGAAATCGGGCGCACGACTGACCCGGTACGCATGTACATGCGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGG  >  REL606/3146067‑3146207

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑