Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_vch_tpiA	2,214,152	A→T	Y165N (TAT→AAT)	yehU ←	inner membrane putative sensory kinase in two‑component system with YehT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_vch_tpiA	2,214,152	0	A	T	100.0%	95.0 / NA	35	Y165N (TAT→AAT)	yehU	inner membrane putative sensory kinase in two‑component system with YehT
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (16/19);  total (16/19)

GCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATAAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAGGCCACCGAGTAATCC  >  NC_000913_3_vch_tpiA/2214016‑2214293                                                                                                                                         |                                                                                                                                              gCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGAt                                                                                                                                   >  1:479062/1‑149 (MQ=255) gCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAAAATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACGGCATCTTCATTAGGTCGGGCGAt                                                                                                                                   >  1:33282/1‑149 (MQ=255) gCAAAAAAAGGCGAAGTGTATTTTTCAAACGTCGCGCGGTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGAt                                                                                                                                   <  2:67901/149‑1 (MQ=255)      aaaaGCCGAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCCTCGCTGACGGTATTGGTGACCATCATTGGCGCGGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCaa                                                                                                                              <  1:268228/149‑1 (MQ=255)             gAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTCGCGCAGCAATATTACTCACCAGTTGTTCCGCATCTTCATTAGGTCGGGCGATCGCAAGgatgat                                                                                                                       <  1:283654/149‑1 (MQ=255)             gAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCAGCACCGACGGTATTGGTAACCATCATTCGCGCAGCAATATTACTCACCACACGCACCGCAACTCCATTCGGTCGGGCGATCGCAAGgatgat                                                                                                                       >  1:85078/1‑149 (MQ=255)              aactgtATTTTTCAAACATCGCGCGTTTAGCGATCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATc                                                                                                                      <  1:95984/146‑1 (MQ=255)                          cAAACATCGCGCGTTTATCGAGCAATATACCCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCAcc                                                                                                          <  2:382562/149‑1 (MQ=255)                              cATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCAttt                                                                                                      <  2:532766/149‑1 (MQ=255)                               aTCGCGCGTTTATCGATCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCCCCCATATTACTCACCAGGCGCACCGCATCTTCATTAGGTTGGGCGATAGCAAGTGTGACCAGCCTTTGCACCAttcc                                                                                                     >  2:45885/1‑147 (MQ=255)                                    gcgTTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGcga                                                                                                <  2:479062/149‑1 (MQ=255)                                         tATCGAGCAATATACGCATAAACAGCCCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCCCCGCTTCTTCATTAGGTCGGGCTATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAAc                                                                                           <  1:15775/149‑1 (MQ=255)                                                   tataCGCATAAACTGCGCCGTGCCGCCGGTATTGGTGACCACCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATTTTCAGTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCAc                                                                                 <  2:241500/149‑1 (MQ=255)                                                      ccGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGCCGCAGCAATATTACTCCCCAGACGCACCGCACCTTCATTAGGTCGGGCAAACGCAAGGATGATCCGCATTTGCACCACTTCACCGACGAACGAGACGGCAAcgg                                                                              >  2:478200/2‑149 (MQ=255)                                                        gCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACcggcg                                                                            >  1:314817/1‑149 (MQ=255)                                                         cATAAACAGCGCCGCGCCTACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCTATCGCAAGGATGATCAGCATTTGAACCAATTAGGCGACGGAGGTGAGGGTACcggcgg                                                                           <  2:182380/149‑1 (MQ=255)                                                          aTAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGt                                                                          >  1:473620/1‑149 (MQ=255)                                                                  cgccgcgccgACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGAACCGCATCTTCATTAGGTCGGGCGATCGCCAGGATGAACAGCATTTGCACCATTTCAGCGACGGACGTCACGGCACCGGCGGTAATaggag                                                                  >  2:441712/1‑147 (MQ=255)                                                                      gcgccgACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTaaa                                                              <  1:375645/149‑1 (MQ=255)                                                                          cgAGGGGATTGGTGCCGAGCATTGGGGCAGCAATATTATTGACCAGACGCACCGCATCTTCATTAGGTCGGGCGGTCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACt                                                          <  2:97156/149‑1 (MQ=255)                                                                                  ttGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGt                                                  >  1:302023/1‑149 (MQ=255)                                                                                          catcatTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATc                                                                                                                      >  2:302413/1‑73 (MQ=255)                                                                                          catcatTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATc                                                                                                                      <  1:302413/73‑1 (MQ=255)                                                                                                    gcagcaATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAg                                >  1:441936/1‑149 (MQ=255)                                                                                                     cagcaATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAgg                               <  1:346783/149‑1 (MQ=255)                                                                                                      agcaATATTACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGAAACCATGGCGCTGGTTGCCACGATTTCAACCACGAACGTGAAGGCACCGACGATGACCAGGCTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGa                              >  1:574433/1‑149 (MQ=255)                                                                                                             ttACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATg                                                                      >  1:75099/1‑102 (MQ=255)                                                                                                             ttACTCACCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATg                                                                      <  2:75099/102‑1 (MQ=255)                                                                                                                   aCCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATTGGGTTAAAGACTTTATCAGTGCGTCCGCGGCGGATCAGGATGCTGTGTACCAg                 <  1:474990/149‑1 (MQ=255)                                                                                                                   aCCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAg                 <  2:302023/149‑1 (MQ=255)                                                                                                                   aCCAGACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAg                 >  2:317200/1‑149 (MQ=255)                                                                                                                       gACGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGGACCATTTCAGCGACGAACGTGACGGCACCGACGGTAATGGGGTTAAAACCTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAGGCCa             >  2:492107/1‑149 (MQ=255)                                                                                                                        aCGCACCGCATCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAGGCCAc            <  1:222813/149‑1 (MQ=255)                                                                                                                                 aTCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAGGCCACCGAGTAATc   <  2:314817/149‑1 (MQ=255)                                                                                                                                  tCTTCATTAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCAACGAACGTGACGGCACCGGCGACAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGGGTACCAGGCCTCCGAGTACTcc  >  2:213519/1‑149 (MQ=255)                                                                                                                                         |                                                                                                                                              GCAGAAAAAGCCGAAGTGTATTTTTCAAACATCGCGCGTTTATCGAGCAATATACGCATAAACAGCGCCGCGCCGACGGTATTGGTGACCATCATTGGCGCAGCAATATTACTCACCAGACGCACCGCATCTTCATAAGGTCGGGCGATCGCAAGGATGATCAGCATTTGCACCATTTCAGCGACGAACGTGACGGCACCGGCGGTAATGGGGTTAAAGACTTTATCAGTGCGCCCGCGGCGGATCAGGATGCTGTGTACCAGGCCACCGAGTAATCC  >  NC_000913_3_vch_tpiA/2214016‑2214293

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑