Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,038,183	(T)5→4	intergenic (+78/‑236)	BW25113_RS10330 → / → yeeJ	tRNA‑Asn/inverse autotransporter adhesin YeeJ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,038,179	0	T	.	100.0%	114.6 / NA	27	intergenic (+74/‑240)	BW25113_RS10330/yeeJ	tRNA‑Asn/inverse autotransporter adhesin YeeJ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (10/17);  total (10/17)

GAGGAGCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGTTTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCATTTTCCCCTCGATTATAAAA  >  NZ_CP009273/2038097‑2038264                                                                                   |                                                                                      gaggagCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGttttaaca                                                                                >  2:607875/1‑86 (MQ=255) gaggagCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGttttaaca                                                                                <  1:613333/90‑5 (MQ=255) gaggagCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGttttaaca                                                                                >  2:846797/1‑86 (MQ=255)         aaaTTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAgc                                                                       <  2:435074/90‑1 (MQ=255)               tAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTc                                                                 <  2:87285/90‑1 (MQ=255)                aaaaaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCg                                                                <  2:761172/90‑1 (MQ=255)                aaaaaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCg                                                                <  2:953243/90‑1 (MQ=255)                aaaaaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCg                                                                <  1:607875/90‑1 (MQ=255)                 aaaaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGa                                                               <  2:395413/90‑1 (MQ=255)                   aaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGAcc                                                             <  2:52488/90‑1 (MQ=255)                   aaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGAcc                                                             <  2:282925/90‑1 (MQ=255)                        gCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTAt                                                        >  2:322488/1‑90 (MQ=255)                                      aTGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGttt                                          <  1:1062443/90‑1 (MQ=255)                                      aTGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGttt                                          <  1:640139/90‑1 (MQ=255)                                              gACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTc                                                                 <  1:990019/59‑1 (MQ=255)                                              gACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTc                                                                 >  2:990019/1‑59 (MQ=255)                                              gACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGttt                                          <  2:1179152/82‑1 (MQ=255)                                              gACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGttt                                          >  1:1179152/1‑82 (MQ=255)                                                ccTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAAc                                <  1:322507/90‑1 (MQ=255)                                                      ttGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATc                          <  2:905236/90‑1 (MQ=255)                                                        gAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCAc                        >  1:676476/1‑90 (MQ=255)                                                        gAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCAc                        >  1:199747/1‑90 (MQ=255)                                                        gAACATTGTTTTTTAACGGATAGCGGG‑GTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTTAGGGCGGTTTGCTATGAACGCCATCAc                        >  1:1075019/1‑90 (MQ=255)                                                          aCATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATc                          >  2:454781/1‑86 (MQ=255)                                                          aCATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATc                          <  1:454781/86‑1 (MQ=255)                                                             ttGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCAttt                   >  2:821268/1‑90 (MQ=255)                                                                  ttttAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAggg                                               <  2:224206/57‑1 (MQ=255)                                                                  ttttAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAggg                                               >  1:224206/1‑57 (MQ=255)                                                                  ttttAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCATTTTcccc              <  1:1165205/90‑1 (MQ=255)                                                                              gCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCATTTTCCCCTCGATTATaaaa  >  1:903207/1‑90 (MQ=255)                                                                                   |                                                                                      GAGGAGCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGTTTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCATTTTCCCCTCGATTATAAAA  >  NZ_CP009273/2038097‑2038264

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑