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%	432.5 / NA	87	intergenic (+89/‑6)	yggI/endA	conserved protein YggI/DNA‑specific endonuclease I
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (42/45);  total (42/45)

CCAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAGTAAGTGATGTACCGTTATTTGTCTATTGCTGCGGTGGTACTGAGC  >  NC_000913/3090297‑3090385                                             |                                             ccAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTg                                         <  1:5064057/49‑1 (MQ=255) ccAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGc                                        >  1:3236815‑M1/1‑49 (MQ=255)  cAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                       <  1:670143‑M1/50‑3 (MQ=255)  cAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                       >  1:1874172‑M1/1‑48 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcct                                      <  1:3319146‑M1/50‑4 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcct                                      <  1:1598302‑M1/50‑4 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcct                                      <  1:576084‑M1/50‑4 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                       >  1:4157696‑M1/1‑47 (MQ=255)   aaaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcc                                       >  1:4731216‑M1/1‑47 (MQ=255)    aaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                     >  1:4562158‑M1/1‑46 (MQ=255)    aaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                     >  1:2830043‑M1/1‑46 (MQ=255)    aaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                     >  1:5460466‑M1/1‑46 (MQ=255)    aaaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGccta                                     >  1:6103913‑M1/1‑46 (MQ=255)     aaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctac                                    <  1:2425805‑M1/50‑6 (MQ=255)     aaCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctac                                    <  1:8085372‑M1/50‑6 (MQ=255)      aCAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctaca                                   <  1:5605494‑M1/50‑7 (MQ=255)      aCAGCTTTCGCTACGTTGCTGGCTAGTTTTAACACGGAG‑AAGTGcctaca                                   <  1:15184‑M1/50‑7 (MQ=255)        aGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacact                                 <  1:6219533‑M1/50‑9 (MQ=255)          cTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactag                               <  1:6006714‑M1/50‑11 (MQ=255)          cTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactag                               <  1:5399937‑M1/50‑11 (MQ=255)          cTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactag                               >  1:175321‑M1/1‑40 (MQ=255)          cTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactag                               >  1:4994505‑M1/1‑40 (MQ=255)           tttCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                              >  1:1084698‑M1/1‑39 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgg                            >  1:5625642‑M1/1‑37 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcg                             <  1:6390635‑M1/49‑13 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcg                             <  1:639270‑M1/49‑13 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcg                             <  1:7184706‑M1/49‑13 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                              <  1:4821411‑M1/48‑12 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                              <  1:7809496‑M1/48‑12 (MQ=255)             tCGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagc                              <  1:1246469‑M1/48‑12 (MQ=255)              cGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgg                            >  1:7823031‑M1/1‑36 (MQ=255)              cGCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgg                            <  1:2320585‑M1/49‑14 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggga                          <  1:5530969‑M1/50‑16 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggga                          <  1:2711935‑M1/50‑16 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggga                          >  1:7727033‑M1/1‑35 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggga                          <  1:2878478‑M1/50‑16 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggga                          <  1:3302978‑M1/50‑16 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggg                           <  1:7877881‑M1/49‑15 (MQ=255)               gCTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcggg                           <  1:1753887‑M1/49‑15 (MQ=255)                cTACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggat                         >  1:2474682‑M1/1‑34 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggatt                        >  1:4086194‑M1/1‑33 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggatt                        >  1:3114221‑M1/1‑33 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggatt                        >  1:4382924‑M1/1‑33 (MQ=255)                 tACGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggatt                        >  1:5227508‑M1/1‑33 (MQ=255)                  aCGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattc                       >  1:5762393‑M1/1‑32 (MQ=255)                   cGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattc                       <  1:4549975‑M1/49‑19 (MQ=255)                   cGTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggatt                        <  1:2215277‑M1/48‑18 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     >  1:456338‑M1/1‑30 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     >  1:2604726‑M1/1‑30 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     >  1:5227348‑M1/1‑30 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     <  1:5966887‑M1/50‑21 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     <  1:6102010‑M1/50‑21 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     >  1:6287128‑M1/1‑30 (MQ=255)                    gTTGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctt                     >  1:4621026‑M1/1‑30 (MQ=255)                     ttGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttt                    <  1:817999‑M1/50‑22 (MQ=255)                     ttGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattcttt                    <  1:5251919‑M1/50‑22 (MQ=255)                      tGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttt                   >  1:6689548‑M1/1‑28 (MQ=255)                      tGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttt                   >  1:6222029‑M1/1‑28 (MQ=255)                      tGCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttt                   >  1:4253714‑M1/1‑28 (MQ=255)                       gCTGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttt                   <  1:698698‑M1/49‑23 (MQ=255)                         tGGCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgt                >  1:6729132‑M1/1‑25 (MQ=255)                          ggCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgt                >  1:2861306‑M1/1‑24 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtta              <  1:7622299‑M1/50‑28 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtt               <  1:6067445‑M1/49‑27 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtt               <  1:1614138‑M1/49‑27 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgtt               >  1:1373090‑M1/1‑23 (MQ=255)                           gCTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgt                <  1:3898821‑M1/48‑26 (MQ=255)                            cTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaa             >  1:2453246‑M1/1‑22 (MQ=255)                            cTCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaa             <  1:3703153‑M1/50‑29 (MQ=255)                             tCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaac            >  1:7324119‑M1/1‑21 (MQ=255)                             tCGTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaac            >  1:1114458‑M1/1‑21 (MQ=255)                               gTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaaccc          >  1:2541761‑M1/1‑19 (MQ=255)                               gTTTTAACACGGAG‑AAGTGcctacactagcgggattctttttgttaaccc          >  1:5293890‑M1/1‑19 (MQ=255)                                ttttAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacccc         <  1:4371301‑M1/50‑33 (MQ=255)                                 tttAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacccc         >  1:661104‑M1/1‑17 (MQ=255)                                 tttAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacccc         >  1:4644164‑M1/1‑17 (MQ=255)                                 tttAACACGGAG‑AAGTGcctacactagcgggattctttttgttaacccc         >  1:3424646‑M1/1‑17 (MQ=255)                                  ttAACACGGAG‑AAGTGcctacactagcgggattctttttgttaaccccta       >  1:3916501‑M1/1‑16 (MQ=255)                                    aaCACGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacc     >  1:7579605‑M1/1‑14 (MQ=255)                                     acacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctaccc    <  1:4885671‑M1/50‑38 (MQ=255)                                     acacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctaccc    <  1:1209052‑M1/50‑38 (MQ=255)                                     acacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacc     <  1:664080‑M1/49‑37 (MQ=255)                                      cacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacccc   <  1:6938167‑M1/50‑39 (MQ=255)                                      cacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacccc   <  1:510879‑M1/50‑39 (MQ=255)                                      cacGGAG‑AAGTGcctacactagcgggattctttttgttaacccctaccc    >  1:100737‑M1/1‑12 (MQ=255)                                       acGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacccca  <  1:598852‑M1/50‑40 (MQ=255)                                       acGGAG‑AAGTGcctacactagcgggattctttttgttaacccctacccca  <  1:256286‑M1/50‑40 (MQ=255)                                             |                                             CCAAAACAGCTTTCGCTACGTTGCTGGCTCGTTTTAACACGGAGTAAGTGATGTACCGTTATTTGTCTATTGCTGCGGTGGTACTGAGC  >  NC_000913/3090297‑3090385

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑