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%	42.0 / NA	11	intergenic (+74/‑240)	BW25113_RS10330/yeeJ	tRNA‑Asn/inverse autotransporter adhesin YeeJ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (5/6);  total (5/6)

GAGGAGCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGTTTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCATTT  >  NZ_CP009273/2038097‑2038247                                                                                   |                                                                     gaggagCCAAATTCTAAAAATTCGC‑TTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACAt                                                             >  2:297699/1‑90 (MQ=255)              cTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCt                                                 <  1:332905/90‑1 (MQ=255)                   aaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGAcc                                            <  1:209321/90‑1 (MQ=255)                   aaTTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGAcc                                            <  1:2933/90‑1 (MQ=255)                                 gcgcAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAggg                              >  2:222969/1‑90 (MQ=255)                                                   tAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGAcc                                            >  1:242546/1‑58 (MQ=255)                                                   tAGTTGAACATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGAcc                                            <  2:242546/58‑1 (MQ=255)                                                          aCATTGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCa     >  1:164151/1‑90 (MQ=255)                                                             ttGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTAt                                       <  1:70601/53‑1 (MQ=255)                                                             ttGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTAt                                       >  2:70601/1‑53 (MQ=255)                                                             ttGTTTTTTAACGGATAGCGGG‑TTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCAttt  <  1:234064/90‑1 (MQ=255)                                                                                   |                                                                     GAGGAGCCAAATTCTAAAAATTCGCTTTTTTAGCGCAATGTCACTGACCTTAGTTGAACATTGTTTTTTAACGGATAGCGGGTTTTTAACATCTTAAGCGCCCTCGACCTTTATGGTTGAGGGCGTTTTGCTATGAACGCCATCACCATTT  >  NZ_CP009273/2038097‑2038247

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑