Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,867,455	G→A	Q33* (CAG→TAG)	rpoS ←	RNA polymerase sigma factor RpoS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,867,455	0	G	A	100.0%	69.8 / NA	24	Q33* (CAG→TAG)	rpoS	RNA polymerase sigma factor RpoS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (14/10);  total (14/10)

AATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTGTTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAAAGCCTGGTTCCGCCGATTTATCGCTGCGGCAAATAACGCAGCGGGTTTACGGATTTCCCCTTGTAACGAATTTCAAAATGCA  >  NC_000913/2867237‑2867678                                                                                                                                                                                                                           |                                                                                                                                                                                                                                aaTTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTATTCGGCCAACTCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAATCCTCa                                                                                                                                                                                                  >  1:35797/1‑250 (MQ=255)     tttACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCGCCCTGCGATAACAGTTCCTCTTCGGCCAAAGCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTc                                                                                                                                                                                              <  1:192168/250‑1 (MQ=255)                 cGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTTGGTGCCTATTCTACTAATGCCGTTTCGGCAAAAACCTCAACTCCGTTCTCATCaaa                                                                                                                                                                                 <  2:256746/251‑1 (MQ=255)                           tctcGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTc                                                                                                                                                                                                                              >  1:279856/1‑196 (MQ=255)                               gATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACACGCACAATAAACTTCTTCTTCGGCCGTTAACAGTGGAGAATAACCAATCTCACAAGGGTAAAGCTGAGTCGCGTCCAACACACGCTGGGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCAATGGGTTCCTAGTCTACTAAAGCCTTTTAGTCAAAAACCTCAAATCCGTTCTAATCAAATTAAGCATCTTcct                                                                                                                                                                   >  1:391045/1‑249 (MQ=255)                                  catcCGGCTGCGAGAGGCGACATCGCCACGCAGTGCGCGAAGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCGGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGGTCCTATTCTACTAAGGCCTTTTCGTCAAACACCGCAACTCCGTTCTCATCAAATGCCGCATATTCAttt                                                                                                                                                                 <  2:126617/250‑1 (MQ=255)                                         cggcgAGAGGCGACATCGCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATg                                                                                                                                                         <  2:391743/251‑1 (MQ=255)                                               gagGCGACATCTCCACGCAGTGCGCGACGCGCAAAATGAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGGTCCTCTTCGGCCAAATAGTTATCACTGGGTTCCTATTATACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGacattt                                                                                                                                                   >  2:271744/1‑246 (MQ=255)                                                        tctcCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCt                                                                                                                                                                       <  1:194826/222‑1 (MQ=255)                                                        tctcCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTAAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCt                                                                                                                                                                       >  2:194826/1‑222 (MQ=255)                                                              cGCAGTGCGCGACGCGCAAAATAATCTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCTATCTCACCAAGGTAAAGCTTATTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACt                                                                                                                                    <  1:79685/251‑1 (MQ=255)                                                                               aaaaTCAACTTCTTGTTCGGCCGTTAACAGCGGCGACTCACCAATCTCACCAAGGTCAAGCTGAGTCGCGACCAACACACCCTGAATGGCTCCATGCGATAACAATTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAACGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTAc                                                                                                                   >  1:130631/1‑251 (MQ=255)                                                                                          cttcttcGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTc                                                                                                                                                                                                               <  2:287683/148‑1 (MQ=255)                                                                                          cttcttcGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTc                                                                                                                                                                                                               >  1:287683/1‑148 (MQ=255)                                                                                                     gTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACAt                                                                                             >  1:68972/1‑251 (MQ=255)                                                                                                          cAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACTCGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACACGTGATCCCTTGACGGAACATTCa                                                                                          >  1:281312/1‑249 (MQ=255)                                                                                                                            ctcACCAAGGTAACGCTGAGTAGCGACCCACACACACTGAGTGCCACACTGCGATCACAGAACCCCTTAGGCCAACTCGAAATCACTGGGTACCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTATTAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAACAGCCTGGTTccgcc                                                                      >  2:207131/1‑251 (MQ=255)                                                                                                                                      tAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAACAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAACGCCTGGTTCCGCCGATTTATCGc                                                            >  1:421795/1‑251 (MQ=255)                                                                                                                                         agttGAGTCGCATACAACAAAAGCTGCGTGGCTCCCTGCGCTAACAGTTACTCTTCGGCCAAATAGGTATCACTGGGTTACTATTCTACTAAGGCCTTTTCTTCAAAAACCTCAACTCCGTTCTCATCAAATTACGCATCTTCTTTTAAATCCTGAACTATCAGCGTATTCTGACTCATAAGGTGGCTCCTAACCGTAATCACTTGACGGAACTTTCAAGCAAAAGCCTGGTGCCGACGATTTAACGcagc                                                         >  2:75867/4‑248 (MQ=255)                                                                                                                                           cTGAGTCGCGTCCAACACACGCTGTGTGGCTCCATGCGATCACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAAAGCCTGGTTCCGCCGATTTATCGCTGCgg                                                       >  1:139999/1‑251 (MQ=255)                                                                                                                                                              cGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTGCTCATCAAATTCCGCATTTTCATTTAAATCATGAACTGTCAGCGTATTCTGACTCATAAGGTGGCACCTACCCGTGATCCCTTGACGGAACATGCAAGCAAAAGCCTGGTTGCGCCGGTTTATCGCTGCGGCAAAGAACGCAGCGGGttt                                    <  1:369233/251‑1 (MQ=255)                                                                                                                                                                  gtgtgGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAAAGCCTGGTTCCGCCGATTTATCGCTGCGGCAAATAACGCAGCGGGTTTAc                                  <  1:386775/249‑1 (MQ=255)                                                                                                                                                                                gATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAAAGCCTGGTTCCGCCGATTTATCGCTGCGGCAAATAACGCAGCGGGTTTACGGATTTCCCCTTGTaa                  <  1:244593/251‑1 (MQ=255)                                                                                                                                                                                                  gCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAAAGCCTGGTTCCGCCGATTTATCGCTGCGGCAAATAACGCAGCGGGTTTACGGATTTCCCCTTGTAACGAATTTCAAAATGCa  >  1:31097/1‑249 (MQ=255)                                                                                                                                                                                                                           |                                                                                                                                                                                                                                AATTTTTACCACCAGACGCAAGTTACTCTCGATCATCCGGCGGCGAGAGGCGACATCTCCACGCAGTGCGCGACGCGCAAAATAAACTTCTTCTTCGGCCGTTAACAGTGGTGAATAACCAATCTCACCAAGGTAAAGCTGAGTCGCGTCCAACACACGCTGTGTGGCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTGTTCTACTAAGGCCTTTTCGTCAAAAACCTCAACTCCGTTCTCATCAAATTCCGCATCTTCATTTAAATCATGAACTTTCAGCGTATTCTGACTCATAAGGTGGCTCCTACCCGTGATCCCTTGACGGAACATTCAAGCAAAAGCCTGGTTCCGCCGATTTATCGCTGCGGCAAATAACGCAGCGGGTTTACGGATTTCCCCTTGTAACGAATTTCAAAATGCA  >  NC_000913/2867237‑2867678

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑