Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	89,263	A→G	intergenic (+231/‑371)	cra → / → mraZ	DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	89,263	0	A	G	100.0%	93.6 / NA	28	intergenic (+231/‑371)	cra/mraZ	DNA‑binding transcriptional dual regulator Cra/DNA‑binding transcriptional repressor MraZ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (11/17);  total (11/17)

GCTCAGCCGTAGCTAAGCCGCGAACAAAAATACGCGCCAGGTGAATTTCCCTCTGGCGCGTAGAGTACGGGACTGGACATCAATATGCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAATGCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTTCGCACGTTGGACGTAAAATAAACAACGCTGATATTAGC  >  NC_000913/89017‑89509                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                       gCTCAGCCGTAGCTAAGCCGCGAACAAAAATACGCGCCAGGTGAATTTCCCTCTGGCGCGTAGAGTACGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACt                                                                                                                                                                                                                                                    <  1:21486/251‑1 (MQ=255)        cGTAGCTAAGCCGCGAACAAAAATACGCGCCAGGTGACTTTCCCTCTGGAGCGTAGAGTACGGGAATGGACATCAATATCCTTAAAGTACATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGCAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCttt                                                                                                                                                                                                                                             >  2:149997/1‑251 (MQ=255)               aaGCCGCGAACAAAAATACGCGCCATGTGAATTTCCCTCTGGCGCGTAGAGTACGGGAATGGACATCAATATCCTTAAAGTAAATAATACTATTCCTGACTATTATTTATAAGTTCTTTTAAACCCTCCCGTTAATTAACTCACCAGCTTAAATTCACAATAAGTAAGTGATATCGACAGCTCGTTTTTGCATTAGTTTGTTGCATGGATAGAGGTATTGCCGATTTAACAAGCACTGTTCTTTGCtttt                                                                                                                                                                                                                                       <  1:226975/250‑1 (MQ=255)                     cgAACAAAAATACGCGCCAGGTGAATTTCCCTCTGGCGCGTAGAGTACGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCaaa                                                                                                                                                                                                                                <  2:147775/251‑1 (MQ=255)                           aaaaTACGCGCCAGGTGAATTTCCCTCTGGCGCGTCGAGTACGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCt                                                                                                                                                                                                                          >  1:221422/1‑251 (MQ=255)                                   cgcCAGGTGAATTTCCCTCTGGCGCGTAGAGTACGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCa                                                                                                                                                                                                                   >  1:66174/1‑250 (MQ=255)                                                 cccTCTGGCGCGTAGAGTACGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCTATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGAc                                                                                                                                                                                                     <  1:279895/250‑1 (MQ=255)                                                                agTACGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTGTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGGCTGTTa                                                                                                                                                                                     <  2:49909/251‑1 (MQ=255)                                                                    cGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGtt                                                                                                                                                                                      >  1:10244/1‑246 (MQ=255)                                                                    cGGGAATGGACATCAATATCCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGtt                                                                                                                                                                                      <  2:10244/246‑1 (MQ=255)                                                                                                          aTTCCTGACTATTATTGATAAGTTCGTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAAc                                                                                                                                           <  2:110392/251‑1 (MQ=255)                                                                                                            tCCTGACTATTATTGATAAGTTCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAATCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACt                                                                                                                                          <  1:233455/250‑1 (MQ=255)                                                                                                                                    tttAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGaa                                                                                                                   <  2:123360/249‑1 (MQ=255)                                                                                                                                                             aCCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAAGCGGTGAAGATATGTCTTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAAGAGTGATTCATTTTAAAACGGtgat                                                                                        <  2:32680/251‑1 (MQ=255)                                                                                                                                                             aCCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGATGATATGTCCTAAAATGCCTCTCGCGTCTCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGtgat                                                                                        <  2:22192/251‑1 (MQ=255)                                                                                                                                                                            caATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGAttt                                                                         <  2:373394/251‑1 (MQ=255)                                                                                                                                                                                                   cgcgTTTTTGCATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGt                                                  <  1:118059/251‑1 (MQ=255)                                                                                                                                                                                                          ttGCATTATTTTGTTACATGCAGAGATGAATTGACGATTTAAAAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGCTATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGATATTCATAACGTTAATTTg                                           >  1:41903/1‑251 (MQ=255)                                                                                                                                                                                                             cATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGAtt                                                                          >  2:209154/1‑217 (MQ=255)                                                                                                                                                                                                             cATTATTTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGAtt                                                                          <  1:209154/217‑1 (MQ=255)                                                                                                                                                                                                              attattTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCtgc                                       >  1:234883/1‑249 (MQ=255)                                                                                                                                                                                                              attattTTGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCtgc                                       <  1:176272/251‑3 (MQ=255)                                                                                                                                                                                                                tattTTGTTACATGCAGAGCTAAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCAGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTGTTTCTTACAGCTATTCATAACGTTAATTTGCTgcgc                                     >  2:129003/1‑251 (MQ=255)                                                                                                                                                                                                                  ttttGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTGCGCAc                                   >  1:183446/1‑251 (MQ=255)                                                                                                                                                                                                                    ttGTTACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATCGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTGCGCACGt                                 >  2:302421/1‑251 (MQ=255)                                                                                                                                                                                                                        tACATGCAGAGATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTGCGCACGTTgg                              <  1:105271/250‑1 (MQ=255)                                                                                                                                                                                                                          catgcagagagtaaTTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTGCGCACGTTGGACg                           <  2:331556/239‑1 (MQ=255)                                                                                                                                                                                                                           atgcagagATGAATTGCCGATTTAACAAGCACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTCCTTACAGCTATTCATAACGTTAATTTGCTGCGCACGTTGGACGt                          >  2:103500/8‑251 (MQ=255)                                                                                                                                                                                                                                                   acaagcaCTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGCAACAGGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTGCGCACGTTGGACGTAAAATAAACAACGCTGATAttggc  <  1:239749/251‑4 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                       GCTCAGCCGTAGCTAAGCCGCGAACAAAAATACGCGCCAGGTGAATTTCCCTCTGGCGCGTAGAGTACGGGACTGGACATCAATATGCTTAAAGTAAATAAGACTATTCCTGACTATTATTGATAAATGCTTTTAAACCCGCCCGTTAATTAACTCACCAGCTGAAATTCACAATAATTAAGTGATATCGACAGCGCGTTTTTGCATTATTTTGTTACATGCGGCGATGAATTGCCGATTTAACAAACACTTTTCTTTGCTTTTGCGCAAACCCGCTGGCATCAAGCGCCACACAGACGTAACAAGGACTGTTAACCGGGGAAGATATGTCCTAAAATGCCGCTCGCGTCGCAAACTGACACTTTATATTTGCTGTGGAAAATAGTGAGTCATTTTAAAACGGTGATGACGATGAGGGATTTTTTCTTACAGCTATTCATAACGTTAATTTGCTTCGCACGTTGGACGTAAAATAAACAACGCTGATATTAGC  >  NC_000913/89017‑89509

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑