Predicted mutation
evidence seq id position mutation freq annotation gene description
RA ACB143 1,114,332 C→T 8.7% P241S (CCC→TCC)  lptF → Lipopolysaccharide export system permeaseprotein LptF

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*ACB1431,114,3320CT 8.7% 144.9 / 4.4 46P241S (CCC→TCC) lptFLipopolysaccharide export system permeaseprotein LptF
Reads supporting (aligned to +/- strand):  ref base C (24/18);  new base T (2/2);  total (26/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.02e-01

GCCGAGAAAGGCCACCAGGAAATCCAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATCCTGGT  >  ACB143/1114197‑1114456
                                                                                                                                       |                                                                                                                            
gCCGAGAAAGGCCACCAGGAAATCCAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGtgctgctgc                                                                                                                              >  1:226600/1‑136 (MQ=255)
     gaAAGGCCACCAGGAAATCCAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAg                                                                                                                         >  8:176810/1‑136 (MQ=255)
     gaAAGGCCACCAGGAAATCCAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCAGCAAGTACGACACCTACGGCGTGCTGCTGCCCAAg                                                                                                                         >  8:31915/1‑136 (MQ=255)
              ccaGTAAATCTAGGCGGACTGCAACCGAATCCTGGTGCTGAAAAACGGTTACCTCTACTACGGCAACCCGGGCCAGTCCGACTACCGCGCCATGAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTc                                                                                                                <  1:220564/136‑1 (MQ=255)
                    aaTCCAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAg                                                                                                          <  5:266116/136‑1 (MQ=255)
                       ccAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAgg                                                                                                         >  1:60891/1‑134 (MQ=255)
                                   cAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAgcgc                                                                                           >  2:89901/1‑136 (MQ=255)
                                      ccGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGaa                                                                                        <  5:124459/136‑1 (MQ=255)
                                            ccTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   <  1:1173/135‑1 (MQ=255)
                                            ccTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   <  1:28534/135‑1 (MQ=255)
                                            ccTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   <  8:111247/135‑1 (MQ=255)
                                            ccTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   <  2:91228/135‑1 (MQ=255)
                                                    tGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGCCTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTc                                                                          >  5:35240/1‑136 (MQ=255)
                                                    tGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGTCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   <  4:34599/127‑1 (MQ=255)
                                                    tGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGTCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   >  7:187928/1‑127 (MQ=255)
                                                    tGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGTCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   >  3:34599/1‑127 (MQ=255)
                                                    tGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGTCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCt                                                                                   <  8:187928/127‑1 (MQ=255)
                                                       aaaaCGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCg                                                                        >  4:228803/1‑135 (MQ=255)
                                                         aaCGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAAc                                                                     <  8:145130/136‑1 (MQ=255)
                                                              ttACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATc                                                                >  8:1048/1‑136 (MQ=255)
                                                              ttACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATc                                                                >  4:243733/1‑136 (MQ=255)
                                                                aCCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCg                                                               <  1:106802/135‑1 (MQ=255)
                                                                   gCTACGACGGCAACCCGGGCCAGGCCGACTACCGCTCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCCAAGCGCTTCCCACCTCCGAACTGATCGGCaa                                                           <  4:45370/136‑1 (MQ=255)
                                                                   gCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCaa                                                           <  2:71704/136‑1 (MQ=255)
                                                                         acgGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTCCGACACCGACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGCAGCGCTTCCCCCCTCCGAACTGATCGGCAAGGAggg                                                     >  8:211329/1‑136 (MQ=255)
                                                                                    ggCCAGGCCGACTACCGCGCAATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAgc                                          <  7:19649/136‑1 (MQ=255)
                                                                                       cAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAgcgcg                                       <  7:214579/136‑1 (MQ=255)
                                                                                          gCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCg                                    <  5:246931/136‑1 (MQ=255)
                                                                                             gACTACCGCGCCATCAAGTACGACCCCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCAGAGGAAGTGACCGAGCTCGAAGCGCTTCCCACATACGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCAGAGc                                 >  6:137743/1‑136 (MQ=255)
                                                                                             gACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCAGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGc                                 >  6:137740/1‑136 (MQ=255)
                                                                                              aCTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCt                                <  5:104038/136‑1 (MQ=255)
                                                                                                 aCCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCa                             >  4:205811/1‑136 (MQ=255)
                                                                                                  ccGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCACGCCGGAGGTCGCCGAGGAAGTGACCGCGCGCGAAGCGCTTACCCCCTCCGACCTGATCTGCACGGAGGGCCTGCGTGAGCGCGCCGAGCGGc                              >  6:277433/1‑134 (MQ=255)
                                                                                                        cATCTAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCgg                      >  8:236898/1‑136 (MQ=255)
                                                                                                        cATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCgg                      >  5:103522/1‑136 (MQ=255)
                                                                                                               tACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGc               <  4:211734/136‑1 (MQ=255)
                                                                                                                       cTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGCGCTGCAATGGCGGTTGTCGCTGCCGATc       >  2:167326/1‑136 (MQ=255)
                                                                                                                       cTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATc       >  4:3074/1‑136 (MQ=255)
                                                                                                                       cTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATc       >  8:265514/1‑136 (MQ=255)
                                                                                                                         aCGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGc                                                    >  8:34849/1‑89 (MQ=255)
                                                                                                                         aCGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGc                                                    <  7:34849/89‑1 (MQ=255)
                                                                                                                         aCGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGc                                                    >  2:113970/1‑89 (MQ=255)
                                                                                                                         aCGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGc                                                    <  1:113970/89‑1 (MQ=255)
                                                                                                                            gCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATCCTGgt  >  3:49412/1‑136 (MQ=255)
                                                                                                                            gCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATCCTGgt  >  8:253819/1‑136 (MQ=255)
                                                                                                                            gCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATCCTGgt  >  1:17583/1‑136 (MQ=255)
                                                                                                                            gCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATCCTGgt  >  1:172641/1‑136 (MQ=255)
                                                                                                                                       |                                                                                                                            
GCCGAGAAAGGCCACCAGGAAATCCAGGCCGACGGCAACCGCTACCTGGTGCTGGAAAACGGTTACCGCTACGACGGCAACCCGGGCCAGGCCGACTACCGCGCCATCAAGTACGACACCTACGGCGTGCTGCTGCCCAAGCCGGAAGTCGCCGAGGAAGTGACCGAGCGCGAAGCGCTTCCCACCTCCGAACTGATCGGCAAGGAGGGCCTGCGTGAGCGCGCCGAGCTGCAATGGCGGTTGTCGCTGCCGATCCTGGT  >  ACB143/1114197‑1114456

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑