Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	4,479,020	A→T	16.3%	intergenic (+131/+14)	rraB → / ← yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,479,020	0	A	T	16.3%	110.0 / 15.3	43	intergenic (+131/+14)	rraB/yjgM	protein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base A (21/15);  new base T (2/5);  total (23/20)
Fisher's exact test for biased strand distribution p-value = 2.22e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.98e-01

ACGGAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGTTTCCAGATAG  >  NC_000913/4478873‑4479166                                                                                                                                                    |                                                                                                                                                   aCGGAGTTCGCCACTAATTACGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGACATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAacac                                                                                                                                                   >  2:167252/1‑149 (MQ=255)     aGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGGCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGTTCAACTcgcag                                                                                                                                               <  3:121038/149‑3 (MQ=255)     aGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGTTCAACTCGCgg                                                                                                                                               <  1:395419/149‑1 (MQ=255)     aGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGTTCAACTCGCgg                                                                                                                                               <  3:115642/149‑1 (MQ=255)             aCTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCAttttt                                                                                                                                       >  3:164476/1‑149 (MQ=255)                 aTTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTag                                                                                                                                   >  3:60956/1‑149 (MQ=255)                  ttAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTaga                                                                                                                                  <  1:65758/149‑1 (MQ=255)                  ttAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACACGGGCATTTTTTTaga                                                                                                                                  >  4:587165/1‑149 (MQ=255)                                    gCCCAGGTAGTTCCTGCTACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCgta                                                                                                                <  4:606591/149‑3 (MQ=255)                                       cAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACtt                                                                                                             >  1:213549/1‑149 (MQ=255)                                            aGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACaa                                                                                                        <  3:290514/149‑1 (MQ=255)                                                   gCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATc                                                                                                      >  1:607126/1‑144 (MQ=255)                                                   gCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATc                                                                                                      <  2:607126/144‑1 (MQ=255)                                                    cAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATg                                                                                                >  2:587196/1‑149 (MQ=255)                                                                       cccGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCa                                                                             >  4:66538/1‑149 (MQ=255)                                                                       cccGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCa                                                                             >  3:476771/1‑149 (MQ=255)                                                                        ccGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCAt                                                                            >  2:587765/1‑149 (MQ=255)                                                                         cGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATa                                                                           >  4:268836/1‑149 (MQ=255)                                                                         cGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATa                                                                           >  2:66625/1‑149 (MQ=255)                                                                                    ttCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCt                                                                >  4:318904/1‑149 (MQ=255)                                                                                           cacaTCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGcc                                                         >  4:493866/1‑149 (MQ=255)                                                                                               tCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCaaa                                                     >  3:234925/1‑149 (MQ=255)                                                                                               tCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCaaa                                                     >  3:145904/1‑149 (MQ=255)                                                                                               tCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTACGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCaaa                                                     <  1:167252/149‑1 (MQ=255)                                                                                                             aaCGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACACGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAgcgc                                       <  3:587165/149‑1 (MQ=255)                                                                                                              acgtacgtTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCa                                      <  1:587196/149‑1 (MQ=255)                                                                                                                 tacgtTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATg                                   >  1:435707/1‑149 (MQ=255)                                                                                                                    gttgttAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCt                                <  3:66538/149‑1 (MQ=255)                                                                                                                      tgttAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTc                              <  3:493866/149‑1 (MQ=255)                                                                                                                        ttAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGcctcct                            <  1:587765/149‑1 (MQ=255)                                                                                                                                  aaTGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGc                  <  4:234925/149‑1 (MQ=255)                                                                                                                                   aTGCCCGCGTGTTCAACTCGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCaaa                                                     <  1:661971/113‑1 (MQ=255)                                                                                                                                   aTGCCCGCGTGTTCAACTCGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCaaa                                                     >  2:661971/1‑113 (MQ=255)                                                                                                                                   aTGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCg                 <  4:145904/149‑1 (MQ=255)                                                                                                                                       ccGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAg                                                           <  1:540624/103‑1 (MQ=255)                                                                                                                                       ccGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAg                                                           >  2:540624/1‑103 (MQ=255)                                                                                                                                       ccGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCg             >  1:626980/1‑149 (MQ=255)                                                                                                                                        cgcgTGTTCAACTCGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGc                  <  1:618696/143‑1 (MQ=255)                                                                                                                                        cgcgTGTTCAACTCGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGc                  >  2:618696/1‑143 (MQ=255)                                                                                                                                          cgAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGttt          <  1:230030/149‑1 (MQ=255)                                                                                                                                            aGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGTTTcc        <  4:476771/149‑1 (MQ=255)                                                                                                                                              ttGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGTTTCCAg      >  3:374377/1‑149 (MQ=255)                                                                                                                                                gAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGTTTCCAGAt    >  4:527413/1‑149 (MQ=255)                                                                                                                                                gAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGTTTCCAGAt    >  2:87891/1‑149 (MQ=255)                                                                                                                                                  acacGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAACCGGTCGTTTCCAGATag  >  3:129119/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                   ACGGAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCGTTTCCAGATAG  >  NC_000913/4478873‑4479166

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑