Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	584,506	C→T	intergenic (+76/+174)	appY → / ← ompT	DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	584,506	0	C	T	100.0%	75.0 / NA	24	intergenic (+76/+174)	appY/ompT	DNA‑binding transcriptional activator AppY/omptin family outer membrane protease OmpT
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (10/14);  total (10/14)

AACTCATAACTTCAAACTCTTATTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTCCATTTT  >  NC_000913/584261‑584744                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                               aaCTCATAACTTCAAACTCTTATTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTaa                                                                                                                                                                                                                                           <  1:228007/251‑1 (MQ=255)      aTAACTTCAAACTCTTATTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTGTTTTTTGATGTGATATTCTGTAACTATTAATTTGt                                                                                                                                                                                                                                      <  1:119068/251‑1 (MQ=255)                          tatatattgcgttgcacAGAAATGTGGCTATAACAGTACTTCATATTTCAGATTTGCATTTAAAGATTATTTTGGTGATACGCCAGCTCATTATTTTGAGAAAATAATCGGCGTCACAGATTGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTTTCTTCATGTTAATTATAATATTATACAGCGTTTTTGTTTATGTGATATTCTGGAACTAGTAATTCGTAATTGGCTTGCGGTCGCCt                                                                                                                                                                                                                   <  2:198312/234‑1 (MQ=255)                             cAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTGCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACTCTATCTCATTATTTTGAGAAAATAATCGGCGTCTCAGATGGAATAAACAAAACAATTGACTGATAATGTGTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCTTAttt                                                                                                                                                                                                               <  2:410918/251‑1 (MQ=255)                                      aGCCCAGAAATGTGGCTATAACAGTACCTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTatacatac                                                                                                                                                                                                      <  1:277399/251‑1 (MQ=255)                                         ccAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACtat                                                                                                                                                                                                   <  1:172737/251‑1 (MQ=255)                                                 gtgGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCAAGCCATCTCATTATTTTGAGAAAATAATCGGCGTCAAAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAAATATTAATTTGAAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATg                                                                                                                                                                                           >  1:25967/1‑251 (MQ=255)                                                            aGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAACTAATCGGCGTCACAGATGACATAAACAACACCATTGACTGATAATGTTTATTACAAGGTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTTATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCATATTTTATACATACTATAATTGATGGTTTTCTAtgt                                                                                                                                                                                >  1:424059/1‑251 (MQ=255)                                                                                             tattttGGTGTCACACAATCTCATTATTTTGAGAAAATAATCGGCATCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGTCTATTTTATACATACTATAATTTATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTa                                                                                                                                                <  2:49397/250‑1 (MQ=255)                                                                                              attatGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAg                                                                                                                                              <  1:191041/251‑1 (MQ=255)                                                                                                                   attattTGGAGAAAATAAACGGCGTCACAGATGGAATAAACAAAACAATTGACTTATAATTTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTGTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAAt                                                                                                                         <  1:288928/251‑1 (MQ=255)                                                                                                                           gagaAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTTGCTACATGTTAATTATAATAGTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGt                                                                                                                  <  2:409810/250‑1 (MQ=255)                                                                                                                            agaAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTAAAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGttt                                                                                                                >  1:61532/1‑250 (MQ=255)                                                                                                                               aaaTAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTc                                                                                                             <  1:195037/251‑1 (MQ=255)                                                                                                                                                          acaaaacaaTTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGaa                                                                                   >  1:108491/1‑250 (MQ=255)                                                                                                                                                           caaaacaaTTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATCATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTACCCGGGGCGATTTTCACCTCGGGGAAAt                                                                                 >  1:22064/1‑251 (MQ=255)                                                                                                                                                             aaacaaTTGCCTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTACTTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGTTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAAttt                                                                               >  2:432588/1‑251 (MQ=255)                                                                                                                                                                     gACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTgg                                                                        <  1:338516/250‑1 (MQ=255)                                                                                                                                                                                  tattaCAAGTTGACTACATGTTAATTATCATATTCTACAGCGTTTTTTTAGATGTGATATGCTGAAACTATTAATTTGTAATAGTGTTGCTGTCGACTATTTTATACATACTATAATTTATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAACTGGCTAGTTATTCACCGGGGCGATTTTCACCTAGGGTAAATTTTAGTTTGCGTTCTTAAACtgt                                                          >  2:114274/1‑251 (MQ=255)                                                                                                                                                                                     taCAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATgtgt                                                        <  1:97719/250‑1 (MQ=255)                                                                                                                                                                                       cAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACt                                                     >  1:302034/1‑251 (MQ=255)                                                                                                                                                                                                     gTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGCTTTTCACCTCGGGGAAATTTTAGTTGGAGTTCTTAAAATGTGTACTTAAGACCAGCagt                                        >  1:40540/1‑250 (MQ=255)                                                                                                                                                                                                                    ataCAGCGTTTTTTTTGATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAg                        <  1:334923/251‑1 (MQ=255)                                                                                                                                                                                                                                          atatTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTCCAtttt  >  1:63697/1‑251 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                               AACTCATAACTTCAAACTCTTATTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTGATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTCCATTTT  >  NC_000913/584261‑584744

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑