Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP006584	2,312,771	G→A	intergenic (‑81/+438)	LY180_11070 ← / ← LY180_11075	hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP006584	2,312,771	0	G	A	100.0%	73.1 / NA	27	intergenic (‑81/+438)	LY180_11070/LY180_11075	hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (13/14);  total (13/14)

ACTGTAATAGCAATTTTTAATCGTGAACTACAGAATATATTCAACCAACTAATAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTTTGTTGAGTCGCCATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACCAGCAGGTTTTTTTATTTTCTGCGATCTACTTTCCAGATATTTTTTGCCA  >  CP006584/2312486‑2313045                                                                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                                                   aCTGTAATAGCAATTTTTAATCGTGAACTACAGAATATATTCAACCAACTAATAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACt                                                                                                                                                                                                                                                                        >  1:63806/1‑298 (MQ=255)   tttaagtgaaaTTTTAATTAGGGAGCTAAAGAGTGTATGCAACCAACTAGTAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTATTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAAGAGCTCCAGTACGGCAATGAGCAAGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTcc                                                                                                                                                                                                                                                                      <  2:163974/289‑1 (MQ=11)    gTAATAGCAATTTTTAATCGTGAACTACAGAATATATTCAACCAACTAATAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCg                                                                                                                                                                                                                                                                     <  1:227587/298‑1 (MQ=255)                             tACAGAATATATTCAACCAACTAATAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTCACTTTTGTGTCAGCGTGTCCATCCGCACTCCTTATTAAGAAGCGCACTACCAACCCCTTACCCTTACACTGCCTTTCTGTACTGGGTTACGTTTGTTGGCCCACGATGTTGCCCTCCGGACCAGAGCACTACCtccagccccg                                                                                                                                                                                                                                            >  2:291725/1‑289 (MQ=14)                               cAGAAATTATTCAACCAACTAATAGATTATTAGTTTATTAAAAGGGGAAGCGGTTTTCCCCCTTAGTGTGGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCaccacc                                                                                                                                                                                                                                          <  2:63806/298‑1 (MQ=14)                                    tatatTCAACCAACTAATAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCACTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTCATAGCTCCAGTACGGCAATGAGCACGTTTAACTTTCGTGTCAGCGTGTCCATCCGCTCTCCTTATTACGTAGCGCAACACCCCCACCTTACCATTACCCTTCCTGCCGATACTGGTCTACGTATGTTGGACCACGATGTTGCACTCCGGAACAGAGCACTACCTACGGCCTCACCCGttc                                                                                                                                                                                                                                     >  2:284485/1‑296 (MQ=14)                                                       gAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAAt                                                                                                                                                                                                                  >  1:6047/1‑298 (MQ=16)                                                                          gtggagtcgtttttCCCCCTTAGTTTGGTTTCAATTTTCCCATTAATTCAACAAATCACTCATCCGGAAAAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACTCTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAAc                                                                                                                                                                                               <  2:62745/288‑1 (MQ=11)                                                                                                             ttGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCtt                                                                                                                                                            <  1:327913/298‑1 (MQ=255)                                                                                                                                 tcaatcaaCCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCagag                                                                                                                                        >  1:122367/1‑298 (MQ=255)                                                                                                                                          cGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTAAACTGGGTTCGATCCGGCGCAACTTCCCAACCGTCAGGATTATAAATCCCATTATCTTACTTGCAACACTGTCCAGCGGTGGTtaat                                                                                                                               >  2:295564/1‑296 (MQ=11)                                                                                                                                                  agCCACTAATAGCTCCAGTACGGGAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAAttcgttc                                                                                                                       <  1:165984/298‑1 (MQ=255)                                                                                                                                                           tAGTTCCATTACTGGAAGGAGCACGGTTAGCTTTCTCGGCCGCGTGTCCATCCGCTCTCCTTATGAAGGAGCCCAAGCCCAGCACCTTACCCTTCAACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACTATGTTGCACTCCGGATCAGAGCACGACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATg                                                                                                              <  2:30428/298‑1 (MQ=14)                                                                                                                                                                    tACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGc                                                                                                     >  1:196580/1‑298 (MQ=255)                                                                                                                                                                           aTGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCa                                                                                              <  1:284485/298‑1 (MQ=255)                                                                                                                                                                                        aCTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATc                                                                                 <  1:295564/298‑1 (MQ=255)                                                                                                                                                                                                                       tatttaAGGACGACAACACCAGCCCTTTACCCTTACACTGCCTGTCGATACTGGTTTACGTGTGTTGGACCACGATTTTGCCTTCCGGAACAGAGCACTACCGGCGGCACCACCCGTCCGGGAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACca                                                  <  2:196580/295‑1 (MQ=18)                                                                                                                                                                                                                         attaAGTAGTGCAACACCAGCCACTTACCCTTGCAGTGCATGTGGATACGGGCTGAAGTATGTTGGACCACTATGTTGCCCTCCGGATCAGAGCACTCTCTGCGGCACCACCCGTCCGGTAGCTAGGACTTGAAATGGGTTCGATCCGGCGCTACTTCCCAACAGTCAGGATTATAAATCTCAGTATCTTGATTGCTACACTGTCCAGAGGTGGTGATAATTCGGTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAGCATCAAAGTAGTAAATGAAAGAACCTGCCTCACcagc                                                <  2:190194/298‑1 (MQ=255)                                                                                                                                                                                                                            aaGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACCAGCAgg                                             <  1:291725/298‑1 (MQ=255)                                                                                                                                                                                                                                 gcgcAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAggtggt                                                                                                                                   <  1:175136/207‑1 (MQ=255)                                                                                                                                                                                                                                 gcgcAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAggtggt                                                                                                                                   >  2:175136/1‑207 (MQ=255)                                                                                                                                                                                                                                      acacCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACCAGCAGGTTTTTTTAtt                                   <  1:56794/298‑1 (MQ=255)                                                                                                                                                                                                                                                     ccttacACTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTACCAACAGTCAGGATTATAAATCTCATTATCTTAAGTGCAACACTGTCCAGAGGGTGTTATAATTCGTTCGTTGATATGCCATGTTGCACTAGTAGTAACTTAACATCAAAGTACTAAATAAAAGAACCTGACTCAACAGCACGTTTTCTTATTTTCTTGGATCTAAtt                    >  2:140345/1‑298 (MQ=18)                                                                                                                                                                                                                                                           acTGCCTGTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACAAGCAGGTTTTTTTATTTTCTGCGATCTACTTTCCAGa              >  1:211811/1‑298 (MQ=255)                                                                                                                                                                                                                                                                  gTCGATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACCAGCAGGTTTTTTTATTTTCTGCGATCTACTTTCCAGATAttttt       >  1:66009/1‑298 (MQ=255)                                                                                                                                                                                                                                                                     gATACTGGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACCAGCAGGTTTTTTTATTTTCTGCGATCTACTTTCCAGATATTTTTTGc    >  1:148217/1‑298 (MQ=255)                                                                                                                                                                                                                                                                       tACTAGTTTACGTATGTTGGACCACGATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACACGTTCGGTAGCCAGGCCTTGAAATGAGTTCGAGCCGGCCCAACTTACCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACTCTATACAAAGGTTGTTATAATTCGTTTCTTTAGAGGCCATGGTCAACAATCAGGAACTTTACATAAGAGTAGTAAACAAAAGAATCTGCCTCACCAGGAACTTGTTTTATTTACTGTGATTTTATTTCCAGTTAttttgtacta  >  2:212129/1‑292 (MQ=12)                                                                                                                                                                                                                                                                                              |                                                                                                                                                                                                                                                                                   ACTGTAATAGCAATTTTTAATCGTGAACTACAGAATATATTCAACCAACTAATAGAATATTAGTTTATTAAAGGGGGAAGCGGTTTTCCCCCTTAGTTGCGTTTCAATTTGCCCATTACTTCAACAAATCAATCAACCGTAACAGAGCCACTAATAGCTCCAGTACGGCAATGAGCACGGTTAACTTTTGTGTCAGCGTGTCCATCCGCTCTCCTTATTAAGGAGCGCAACACCAGCACCTTACCCTTACACTGCCTGTCGATACTGGTTTACGTTTGTTGAGTCGCCATGTTGCACTCCGGATCAGAGCACTACCTGCGGCACCACCCGTCCGGTAGCCAGGACTTGAAATGGGTTCGATCCGGCGCAACTTCCCAACAGTCAGGATTATAAATCTCATTATCTTAATTGCAACACTGTCCAGAGGTGGTTATAATTCGTTCGTTGAGATGCCATGTTGCACTATCAGTAACTTAACATCAAAGTAGTAAATAAAAGAACCTGCCTCACCAGCAGGTTTTTTTATTTTCTGCGATCTACTTTCCAGATATTTTTTGCCA  >  CP006584/2312486‑2313045

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑