Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,189,735	A→G	pseudogene (2304/2434 nt)	yqiG →	putative outer membrane usher protein YqiG

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,189,735	0	A	G	100.0%	78.4 / NA	24	pseudogene (2304/2434 nt)	yqiG	putative outer membrane usher protein YqiG
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (7/17);  total (7/17)

CATAACAACATCATTAAGTGTTGATACCCGAAATCTGCCAGAAAATGTGGATATCGAAAACTCGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATACCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAATACAAAGAATATCATTGCAGCAGGAGTATTACTCTCCTGTATGAGCAGCATTGCCTGGGGTGCCATCAT  >  NC_000913/3189490‑3189963                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                     cATAAAAACATCATTAAGTGTTGATACCCGAAATCTGCCAGAAAATGTGGATATCGAAAACTCGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCa                                                                                                                                                                                                                                 <  2:7395/251‑1 (MQ=255)     acatcatcatGAAGTGTTGATACCCGAAATCTGCCAGAAAATGTGGATAGCGAAAACGCGGTTATCCCCACCCCCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGAAAGGGCTACCAAATCACAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATTGCGGCTTTGTATGCCTCAACgg                                                                                                                                                                                                                             <  2:361187/247‑1 (MQ=255)               tAAGTGTTGATACCAGAAATCTGCCAGAAAATGTGGATATCGAAAACTCGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGgat                                                                                                                                                                                                                   >  1:98303/1‑251 (MQ=255)                                     gCCAGAAAATGTGGATATCGAAAACTCGGTTATCCCCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACGTGCTTTAc                                                                                                                                                                                                <  1:309691/248‑1 (MQ=255)                                          aaaaTGTGGATATCGAAAACTCGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATGAGGACTGGTTGCTGATGGCGGCTTTGTAGGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGt                                                                                                                                                                                        <  1:218632/251‑1 (MQ=255)                                               gtgGATATCGAAAACTCGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACa                                                                                                                                                                                    <  1:245117/250‑1 (MQ=255)                                                               cGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCGAACTTGATACCCGCAAGGGCGACCAAATAATAGGGGTTAGTCGCCTGGCAGATGTTAGTCATCCACCACGGGGGATTAGCGTAAAAGATTAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGTGGTGACAAATCTTGTTTTATTc                                                                                                                                                                     <  2:133849/249‑1 (MQ=255)                                                               cGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGTGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGTTGACAAATCTTGTTTTATTCa                                                                                                                                                                    <  1:312756/250‑1 (MQ=255)                                                                  ttATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAacc                                                                                                                                                                 >  2:67696/1‑250 (MQ=255)                                                                                               aTTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGaa                                                                                                                                    <  1:150948/250‑1 (MQ=255)                                                                                               aTTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAAc                                                                                                                                   <  1:205834/251‑1 (MQ=255)                                                                                                         ccAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTa                                                                                                                         <  1:56054/251‑1 (MQ=255)                                                                                                         ccAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAAATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCCCCGGAACGGCTATTTTa                                                                                                                         <  2:87640/251‑1 (MQ=255)                                                                                                           aaaCTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTAcc                                                                                                                       >  1:340057/1‑251 (MQ=255)                                                                                                            aaCTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCg                                                                                                                      <  2:22129/251‑1 (MQ=255)                                                                                                                ggATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCCTGTa                                                                                                                  <  2:98303/250‑1 (MQ=255)                                                                                                                     cccGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTGGTCATCCACCACTTGGGATTAGCGTAAAAGATGAACCCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGTCATTCAGGATGATAACAAACTTGCTTTACGCTTGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGAAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGc                                                                                                             <  2:110599/251‑1 (MQ=255)                                                                                                                                                            cAGATGGTAGACATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAAt                                                                      >  2:335647/1‑251 (MQ=255)                                                                                                                                                                    aGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAAGTAATTCAg                                                                                               <  1:368024/218‑1 (MQ=255)                                                                                                                                                                    aGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAAACAGCCACAAAGCATTAGGCCTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCAACCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAg                                                                                               >  2:368024/1‑218 (MQ=255)                                                                                                                                                                                               aaaGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAATACAAAGAATATCATTGCAGCAGGAGTATTACtctc                                   <  1:222085/251‑1 (MQ=255)                                                                                                                                                                                                     gAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAATACAAAGAATATCATTGCAGCAGGAGTATTACTCTCCTGTa                              <  1:214704/250‑1 (MQ=255)                                                                                                                                                                                                                   aGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAATACAAAGAATATCATTGCAGCAGGAGTATTACTCTCCTGTATGAGCAGCATTGCCt               >  1:97080/1‑251 (MQ=255)                                                                                                                                                                                                                                gTTGCTGATGGCGGCTTTGTATGCCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAATACAAAGAATATCATTGCAGCAGGAGTATTACTCTCCTGTATGAGCAGCATTGCCTGGGGTGCcatcat  >  2:90001/1‑251 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                     CATAACAACATCATTAAGTGTTGATACCCGAAATCTGCCAGAAAATGTGGATATCGAAAACTCGGTTATCACCACCACCTTAACCGAGGGTGCTATTGGCTACGCCAAACTTGATACCCGCAAGGGCTACCAAATCATAGGGGTTATTCGCCTGGCAGATGGTAGTCATCCACCACTGGGGATTAGCGTAAAAGATGAAACCAGCCACAAAGAATTAGGACTGGTTGCTGATGGCGGCTTTGTATACCTCAACGGCATTCAGGATGATAACAAACTTGCTTTACGCTGGGGTGACAAATCTTGTTTTATTCAACCACCCAATAGCAGCAACTTAACCACCGGAACGGCTATTTTACCGTGTATTAGCCAAAATTAATTCAGGATGAAACTAATGCGCTACTTAAATACAAAGAATATCATTGCAGCAGGAGTATTACTCTCCTGTATGAGCAGCATTGCCTGGGGTGCCATCAT  >  NC_000913/3189490‑3189963

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑