Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,090,341	Δ1 bp	intergenic (+89/‑6)	yggI → / → endA	conserved protein YggI/DNA‑specific endonuclease I

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,090,341	0	T	.	100.0%	276.3 / NA	56	intergenic (+89/‑6)	yggI/endA	conserved protein YggI/DNA‑specific endonuclease I
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (23/33);  total (23/33)

CCAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAGTAAGTGATGTACCGTTATTTGTCTATTGCTGCGGTGGTACTGAG  >  NC_000913/3090297‑3090384                                             |                                            ccAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTg                                        <  1:91402/49‑1 (MQ=255) ccAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTg                                        <  1:1870587/49‑1 (MQ=255) ccAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTg                                        <  1:869015/49‑1 (MQ=255) ccAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTg                                        <  1:694646/49‑1 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                      <  1:1112808‑M1/49‑3 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                      >  1:2168677‑M1/1‑47 (MQ=255)    aaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                      >  1:198254‑M1/1‑46 (MQ=255)    aaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                      >  1:774566‑M1/1‑46 (MQ=255)     aaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                    <  1:991103‑M1/49‑5 (MQ=255)     aaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                    <  1:2122681‑M1/49‑5 (MQ=255)     aaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                    <  1:62637‑M1/49‑5 (MQ=255)      aCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctac                                   <  1:2121627‑M1/49‑6 (MQ=255)      aCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctac                                   <  1:1223264‑M1/49‑6 (MQ=255)       cAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctaca                                  >  1:1261387‑M1/1‑43 (MQ=255)         gCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacact                                <  1:181751‑M1/49‑9 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                             <  1:2251742‑M1/48‑12 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                             <  1:879167‑M1/48‑12 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                             <  1:1960360‑M1/48‑12 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactag                              <  1:170101‑M1/47‑11 (MQ=255)              cGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcg                            <  1:2316303‑M1/48‑13 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggg                          <  1:1541828‑M1/49‑15 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgg                           >  1:1253617‑M1/1‑35 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggat                        >  1:1429019‑M1/1‑33 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggat                        >  1:2173992‑M1/1‑33 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggat                        >  1:2155308‑M1/1‑33 (MQ=255)                   cGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattc                      <  1:1091982‑M1/49‑19 (MQ=255)                   cGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggatt                       <  1:2099764‑M1/48‑18 (MQ=255)                   cGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggat                        <  1:516817‑M1/47‑17 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattct                     >  1:383009‑M1/1‑30 (MQ=255)                     ttGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                    <  1:1035962‑M1/49‑21 (MQ=255)                      tGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttt                   >  1:1282529‑M1/1‑28 (MQ=255)                      tGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttt                   >  1:849801‑M1/1‑28 (MQ=255)                      tGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttt                   >  1:1444810‑M1/1‑28 (MQ=255)                       gCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttt                  >  1:458226‑M1/1‑27 (MQ=255)                       gCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttt                   <  1:2261357‑M1/48‑22 (MQ=255)                        cTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttttt                 <  1:1583815‑M1/49‑24 (MQ=255)                        cTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttttt                 <  1:1406068‑M1/49‑24 (MQ=255)                        cTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttt                  <  1:1304063‑M1/48‑23 (MQ=255)                         tGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttg                >  1:1099943‑M1/1‑25 (MQ=255)                         tGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttg                >  1:2256332‑M1/1‑25 (MQ=255)                         tGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttg                >  1:2313919‑M1/1‑25 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtt              <  1:612036‑M1/49‑27 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttg                <  1:1354527‑M1/47‑25 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttg                <  1:2073168‑M1/47‑25 (MQ=255)                            cTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtt              >  1:730186‑M1/1‑22 (MQ=255)                            cTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtt              >  1:2150984‑M1/1‑22 (MQ=255)                               gTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacc          <  1:1764350‑M1/49‑31 (MQ=255)                               gTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacc          <  1:903927‑M1/49‑31 (MQ=255)                               gTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaac           <  1:447368‑M1/48‑30 (MQ=255)                               gTTTTAACACGGAG‑AAGTGcctacactagcgggattcttcttgttaac           <  1:823479‑M1/48‑30 (MQ=255)                                 tttAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacccc        >  1:1559602‑M1/1‑17 (MQ=255)                                    aaCACGGAG‑AAGTGcctacactagcgggattctttttgttaacccctac     >  1:2000255‑M1/1‑14 (MQ=255)                                      cacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctaccc   >  1:2288225‑M1/1‑12 (MQ=255)                                      cacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctaccc   >  1:2239688‑M1/1‑12 (MQ=255)                                       acGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacccc  <  1:2295882‑M1/49‑39 (MQ=255)                                       acGGAG‑AAGTGcctacactagcgggattctttttgttaacccctaccc   >  1:1533532‑M1/1‑11 (MQ=255)                                             |                                            CCAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAGTAAGTGATGTACCGTTATTTGTCTATTGCTGCGGTGGTACTGAG  >  NC_000913/3090297‑3090384

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑