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%	100.8 / NA	31	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 (20/11);  total (20/11)

AACTCATAACTTCAAACTCTTATTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTCCATTTTTGCTGT  >  NC_000913/584261‑584750                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                     aaCTCATAACTTCAAACTCTTATTCTATCAATGTCGTAGCCAAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGAATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTa                                                                                                                                                                                                                                                  >  1:179734/1‑250 (MQ=255)    tCATAACTTAAAACGCTTACTCTATCAATGTCGTAGCCCAGAAATGCAGATATAAAAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGAGTAACGCCATCTCATTATTTTGAGAAAATAATAGGCGTCACAGATGGAATAAAAAAAACAATTGATTGATAATGTTTATTACAAGATGTATACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTATGGAACTATTAAttt                                                                                                                                                                                                                                              >  2:189133/1‑251 (MQ=255)                      aTTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCg                                                                                                                                                                                                                            >  2:311993/1‑251 (MQ=255)                                           aGAAATGTGGCTATAACAGTACTTCATATTTCATATGCGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATAAATACtata                                                                                                                                                                                                        >  2:288636/1‑250 (MQ=255)                                                 gtgGCTAAAACAGTACTTCAGATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATATCATTATTTTGAGAAAATAATCAGCGTCACTGCTGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGATAATAATAATATTATACAGCGTTTTTTTT‑GATGTGATCTTCTGGAACTATTACTTTGTAATTGGGATGATGTCGCCTATTTTATACATACTATATTTGATg                                                                                                                                                                                                 >  2:168114/1‑251 (MQ=255)                                                  tgGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGACTAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTCTAATTGATgg                                                                                                                                                                                                >  1:330692/1‑251 (MQ=255)                                                                    atatttcatatGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTTTGATGTTATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAg                                                                                                                                                                               <  1:18347/251‑1 (MQ=255)                                                                    atatttcatatGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGt                                                                                                                                                                              >  1:112967/1‑251 (MQ=255)                                                                       tttcatatGTGCATTTAAAGCTTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATACTGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTta                                                                                                                                                                            >  2:237497/1‑250 (MQ=255)                                                                                              attatGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCTGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATTCAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTTGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGGTTTCTATGTGATTTATTTAATAACCTTCTGGGTTTATTTTaat                                                                                                                                                    <  2:128681/251‑2 (MQ=255)                                                                                                         aCGCCATCTCATTAATTTGAGAAAATAAACGGCTTCACAGATGGAATAAACAAAACAAATGACTGATAATGTTTATTTCAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGTCTATTTTATACATACGATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATGGtt                                                                                                                                         <  2:140228/251‑1 (MQ=255)                                                                                                             cATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTATTTAATAACCTGCTGGGTTTATTTTAAGGGTTAATTGTTACAt                                                                                                                                     <  1:53049/251‑1 (MQ=255)                                                                                                                     tattTTGAGAAAATAATCGGCGGCACAGATGGAAGAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATTCTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATg                                                                                                                              <  2:16018/250‑1 (MQ=255)                                                                                                                                aataatCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTcc                                                                                                                  >  1:378395/1‑251 (MQ=255)                                                                                                                                    atCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCgg                                                                                                              >  1:272360/1‑251 (MQ=255)                                                                                                                                               aGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCa                                                                                                   <  1:352207/251‑1 (MQ=255)                                                                                                                                                                caaTTGACTGATAATGTTTATTAAAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAAtttt                                                                                    >  1:343884/1‑249 (MQ=255)                                                                                                                                                                 aaTTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGt                                                                                 >  1:16762/1‑251 (MQ=255)                                                                                                                                                                        tGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCAGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGtt                                                                          >  2:304034/1‑251 (MQ=255)                                                                                                                                                                                   attaCAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAAtgtg                                                               >  1:340507/1‑251 (MQ=255)                                                                                                                                                                                            tGTCTACATGTTACTTATACTATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTCTAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAggg                                                                                                                                                  >  2:419806/1‑159 (MQ=255)                                                                                                                                                                                            tGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAggg                                                                                                                                                  <  1:419806/159‑1 (MQ=255)                                                                                                                                                                                              tctagaagatacttATAATATTCTACAGAGTTTTTTTT‑GATGTGCTATTCTGGAACTATTAGTTTGTAATTGGGTTGTTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTGTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGCTTTTCACCTCGGGGAACTTTTAGTTGGCGTTCATAAGATGTGTACTTAAGAc                                                     >  2:295498/13‑250 (MQ=255)                                                                                                                                                                                                 aCATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTGTCGCGGTGATTTAGTTAATACCCTTCTGGGTGTATTTTAAGTGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGTGGCGATTTTCACCGCGGGGAAATTTTATGTGGCGTGCTTAAAAtgtttatttattacca                                                   <  2:370290/249‑14 (MQ=255)                                                                                                                                                                                                                       cAGCGTTTTTTTT‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGttt                           <  1:288636/251‑1 (MQ=255)                                                                                                                                                                                                                                 ttt‑GATGTGCTATTCTCGAAATATTAATTTGTAATTGGGTTGTTGTCGCCTATTTTATACCTACTAAAATTGATGGTTTTCTATGTGATTTAGTTAATAACATTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCACCGGGGCGATTTTCAACTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTCTAGTTTTCtatcactg                 >  2:219358/1‑246 (MQ=255)                                                                                                                                                                                                                                  tt‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTg                 <  1:11369/250‑1 (MQ=255)                                                                                                                                                                                                                                   t‑GATGTGATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCt               >  1:403351/1‑251 (MQ=255)                                                                                                                                                                                                                                       tgtgATATTCTGGAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTcc             >  1:446221/1‑250 (MQ=255)                                                                                                                                                                                                                                           atatTCTGGAACTATTAATTTGTACTTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGGTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGAGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATATCTGCTCCAtttt        >  1:86235/1‑251 (MQ=255)                                                                                                                                                                                                                                                  ggAACTATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTCCATTTTTGCTGt  <  1:304034/250‑1 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                     AACTCATAACTTCAAACTCTTATTCTATCAATGTCGTAGCCCAGAAATGTGGCTATAACAGTACTTCATATTTCATATGTGCATTTAAAGATTATTATGGTGTCACGCCATCTCATTATTTTGAGAAAATAATCGGCGTCACAGATGGAATAAACAAAACAATTGACTGATAATGTTTATTACAAGTTGTCTACATGTTAATTATAATATTATACAGCGTTTTTTTT‑GATGTGATATTCTGGAACCATTAATTTGTAATTGGGTTGCTGTCGCCTATTTTATACATACTATAATTGATGGTTTTCTATGTGATTTAGTTAATAACCTTCTGGGTTTATTTTAAGGGTTAATTGTTACATTGAAATGGCTAGTTATTCCCCGGGGCGATTTTCACCTCGGGGAAATTTTAGTTGGCGTTCTTAAAATGTGTACTTAAGACCAGCAGTAGTGATGAAGTTATAGTTTTCTATACCTGCTCCATTTTTGCTGT  >  NC_000913/584261‑584750

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: ‑