Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,802,005	T→C	intergenic (‑6/+34)	waaJ ← / ← waaO	UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase/UDP‑D‑glucose:(glucosyl)LPS alpha‑1,3‑glucosyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,802,005	0	T	C	100.0%	183.7 / NA	52	intergenic (‑6/+34)	waaJ/waaO	UDP‑glucose:(glucosyl)LPS alpha‑1,2‑glucosyltransferase/UDP‑D‑glucose:(glucosyl)LPS alpha‑1,3‑glucosyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (23/29);  total (23/29)

ACCTACACCATCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCTACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGCGCTATATCTTAA  >  NC_000913/3801871‑3802134                                                                                                                                       |                                                                                                                                  acCTACACCATCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCt                                                                                                                              <  1:317056/140‑1 (MQ=255)   cTACACCATCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTta                                                                                                                            >  1:410535/1‑140 (MQ=255)      cacCATCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTatat                                                                                                                         <  1:422124/140‑1 (MQ=255)           tCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCCTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTatat                                                                                                                         <  2:624893/135‑1 (MQ=255)           tCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCCTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTatat                                                                                                                         >  1:624893/1‑135 (MQ=255)              aGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACtt                                                                                                                 <  1:1189/140‑1 (MQ=255)              aGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACtt                                                                                                                 <  1:950961/140‑1 (MQ=255)                     tAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGtt                                                                                                          >  1:622213/1‑140 (MQ=255)                       gCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTc                                                                                                        <  2:790839/140‑1 (MQ=255)                         aTCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTccc                                                                                                      <  2:605549/140‑1 (MQ=255)                             acacCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGtt                                                                                                  >  1:878270/1‑140 (MQ=255)                                           aTTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCt                                                                                    >  2:36779/1‑140 (MQ=255)                                           aTTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCt                                                                                    >  2:413230/1‑140 (MQ=255)                                             ttAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCttt                                                                                  >  2:218954/1‑140 (MQ=255)                                                 aCATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAACGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCaa                                                                              <  2:155674/140‑1 (MQ=255)                                                        gAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCaataaaata                                                                       <  2:60170/140‑1 (MQ=255)                                                             aTTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATaaaaaa                                                                  >  2:600463/1‑140 (MQ=255)                                                              tttATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAg                                                                 >  2:231393/1‑140 (MQ=255)                                                                  tatTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCTCCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAg                                                             <  1:117316/140‑1 (MQ=255)                                                                   atTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGt                                                            >  1:356729/1‑140 (MQ=255)                                                                        ctagcCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTa                                                       >  2:535643/1‑140 (MQ=255)                                                                        ctagcCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTa                                                       <  1:553164/140‑1 (MQ=255)                                                                        ctagcCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTa                                                       >  1:628145/1‑140 (MQ=255)                                                                        ctagcCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTa                                                       <  1:413230/140‑1 (MQ=255)                                                                        ctagcCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTa                                                       >  2:293519/1‑140 (MQ=255)                                                                           gcCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAAt                                                    <  1:231393/140‑1 (MQ=255)                                                                            ccGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATc                                                   >  2:410702/1‑140 (MQ=255)                                                                            ccGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATc                                                   >  2:626029/1‑140 (MQ=255)                                                                                    cccAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGa                                           <  1:700166/140‑1 (MQ=255)                                                                                       aGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGatat                                        <  1:293519/140‑1 (MQ=255)                                                                                           tttAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTAt                                    <  1:933800/140‑1 (MQ=255)                                                                                              aaCTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTAt                                    >  1:941217/1‑137 (MQ=255)                                                                                              aaCTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTAt                                    <  2:941217/137‑1 (MQ=255)                                                                                                 tttATCTATCTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCtttt                              <  1:837801/140‑1 (MQ=255)                                                                                                   tatctatcTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTAt                                    <  1:650836/132‑1 (MQ=255)                                                                                                   tatctatcTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTAt                                    >  2:650836/1‑132 (MQ=255)                                                                                                   tatctatcTCTATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTa                            >  1:178773/1‑140 (MQ=255)                                                                                                          ctctATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCatat                     >  2:196410/1‑140 (MQ=255)                                                                                                          ctctATGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCatat                     >  2:553124/1‑140 (MQ=255)                                                                                                              aTGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGttt                 <  2:878270/140‑1 (MQ=255)                                                                                                               tGGCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGtt                  <  2:404616/138‑1 (MQ=255)                                                                                                               tGGCAGGAAATGAGGCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGtt                  >  1:404616/1‑138 (MQ=255)                                                                                                                ggCAGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTg               <  2:622213/140‑1 (MQ=255)                                                                                                                   aGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTgcgc            <  1:36779/140‑1 (MQ=255)                                                                                                                   aGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTgcgc            <  1:196410/140‑1 (MQ=255)                                                                                                                   aGGAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTgcgc            <  1:600463/140‑1 (MQ=255)                                                                                                                    ggAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTGTCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGCGCt           >  1:329381/1‑140 (MQ=255)                                                                                                                     gAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGCGCta          <  2:546487/140‑1 (MQ=255)                                                                                                                     gAAATGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGCGCta          <  1:410702/140‑1 (MQ=255)                                                                                                                       aaTGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATg                    <  2:92848/128‑1 (MQ=255)                                                                                                                       aaTGAGTCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATg                    >  1:92848/1‑128 (MQ=255)                                                                                                                             tCCACAATGCCACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGCGCTATATCTTaa  <  1:535643/140‑1 (MQ=255)                                                                                                                                       |                                                                                                                                  ACCTACACCATCAAGATAATTAGCATCGACACCATAGGCAACATTTAAACATTCAGAAGTATTTATATTAGCTAGCCGAAAATCCCAGGCTTTAACTTTATCTATCTCTATGGCAGGAAATGAGTCCACAATGCTACCCTTATATCATTACTTTATAGTTTCCCAGTTTTAATGCTTTATCTTTTCAATAAAATAAAAAAGATAGTTGCTAAATCCTTTTAGATATCTATGCTTTTTAAGCATATGTTTTGCGCTATATCTTAA  >  NC_000913/3801871‑3802134

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑