Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,544,5310CA35.6% 64.7 / 34.5 45intergenic (+48/+66)mdfA/ampGmultidrug MFS transporter/muropeptide permease AmpG
Reads supporting (aligned to +/- strand):  ref base C (14/15);  new base A (10/6);  total (24/21)
Fisher's exact test for biased strand distribution p-value = 5.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CTGCATTTTGCCCTGGCGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAG  >  NC_002947/1544382‑1544677
                                                                                                                                                     |                                                                                                                                                  
ctgcATTTGGCCCGGGCGGGGGGGGGGGCGGGGGCGTTGGCGCTGTGGCCGTTGTGGTTTGTGTTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTacac                                                                                                                                                    <  2:1517816/150‑1 (MQ=39)
 tgcATTTTGCCCTGGCGGCGGGGGGGGCGGGAGAGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGGCGGGGCCGGCCTCTTCGCGGGGAAACCCGCGCCTAcaca                                                                                                                                                   >  1:1191426/1‑150 (MQ=255)
   ttttttGCCGTGGGGGCGGGGGGGGGGGGGGGGTGGGCGGTTGGGCCGCTGTGTTTTGTTGTTGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAgg                                                                                                                                                 <  2:1191426/148‑1 (MQ=37)
   cATTTTCCCCGGGCGGGGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTCGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTCGCTCGATAATCGGTATTGCCGGGGCCGGCCTCATTGCTGGTAAACCCGCTCCTACACAgg                                                                                                                                                 <  1:1029938/150‑1 (MQ=255)
           ccTGGCGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGgccgcgcc                                                                                                                                         >  2:1032622/1‑150 (MQ=255)
                  gcggGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGt                                                                                                                                  <  1:1032622/150‑1 (MQ=255)
                    gggggTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAg                                                                                                                                <  1:1463694/150‑1 (MQ=255)
                        gTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCTGTGCTGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGc                                                                                                                            <  1:183261/150‑1 (MQ=18)
                          ggCGGGGGCGTTGGCGCTGTGGCCGGTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCgg                                                                                                                          <  2:286901/150‑1 (MQ=255)
                            ggggggCGTTGGCGCTGGGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGt                                                                                                                        <  1:262513/149‑1 (MQ=255)
                            cGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGt                                                                                                                        <  1:1507903/150‑1 (MQ=255)
                                                        gTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCaa                                                                                            >  1:820551/1‑150 (MQ=255)
                                                                 gggtgggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGaa                                                                                                             <  2:1075916/124‑1 (MQ=17)
                                                                 gggtgggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGaa                                                                                                             >  1:1075916/1‑124 (MQ=18)
                                                                  ggtgggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                        >  2:49009/1‑128 (MQ=255)
                                                                  ggtgggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                        <  1:49009/128‑1 (MQ=255)
                                                                     gggCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCGCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTa                                                                                                                                 >  1:1421469/1‑100 (MQ=18)
                                                                           ccTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCTGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAg                                                                               >  1:1369577/1‑144 (MQ=255)
                                                                           ccTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCTGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAg                                                                               <  2:1369577/144‑1 (MQ=255)
                                                                           ccTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGc                                                                                                                            <  2:742728/99‑1 (MQ=17)
                                                                           ccTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGc                                                                                                                            >  1:742728/1‑99 (MQ=17)
                                                                                              cTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGgccgcgc                                                                                                                                          <  1:849025/66‑1 (MQ=255)
                                                                                              cTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGgccgcgc                                                                                                                                          >  2:849025/1‑66 (MQ=255)
                                                                                              cTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAg                                                                                                                                >  1:670063/1‑76 (MQ=255)
                                                                                              cTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAg                                                                                                                                <  2:670063/76‑1 (MQ=255)
                                                                                                          tATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCg                                          >  1:1130328/1‑150 (MQ=255)
                                                                                                                        gccTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACaaa                                                                                      >  1:1015247/1‑92 (MQ=255)
                                                                                                                        gccTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACaaa                                                                                      <  2:1015247/92‑1 (MQ=255)
                                                                                                                          ctctTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTATGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGATTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTc                          >  1:993821/1‑150 (MQ=255)
                                                                                                                           tctTCGCGGGGAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTcc                         >  2:1083396/1‑150 (MQ=21)
                                                                                                                                   ggTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTATGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGATTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCa                 <  2:993821/150‑1 (MQ=255)
                                                                                                                                    gTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCa                                                                      >  2:1256496/1‑96 (MQ=255)
                                                                                                                                    gTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCa                                                                      <  1:1256496/96‑1 (MQ=255)
                                                                                                                                    gTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCgg                              >  2:992440/1‑136 (MQ=255)
                                                                                                                                    gTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCgg                              <  1:992440/136‑1 (MQ=255)
                                                                                                                                    gTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCCCGACAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGGGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCAc                >  1:473961/1‑150 (MQ=18)
                                                                                                                                       aaCCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGc             >  1:92300/1‑150 (MQ=25)
                                                                                                                                         cccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGAt                     <  2:1455347/140‑1 (MQ=25)
                                                                                                                                         cccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGAt                     >  1:1455347/1‑140 (MQ=25)
                                                                                                                                         cccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAg           >  2:1216404/1‑150 (MQ=25)
                                                                                                                                          ccGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAgg          >  2:380828/1‑150 (MQ=255)
                                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGCTGCCACTGCAgg          >  2:207515/1‑150 (MQ=25)
                                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAgg          <  2:92300/150‑1 (MQ=25)
                                                                                                                                          ccGCTCATACACACGGCCACCCCGCTTAGTAGCCGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAgg          >  2:1405604/1‑150 (MQ=39)
                                                                                                                                            gCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGc        >  1:1020484/1‑150 (MQ=255)
                                                                                                                                             cTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTcc                         <  1:893405/132‑1 (MQ=25)
                                                                                                                                              tCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCga      >  1:536958/1‑150 (MQ=37)
                                                                                                                                                  acacAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcag  >  1:252811/1‑150 (MQ=255)
                                                                                                                                                     |                                                                                                                                                  
CTGCATTTTGCCCTGGCGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAG  >  NC_002947/1544382‑1544677

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑