Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,022,6180TG40.6% 21.4 / 28.7 32intergenic (‑313/+355)PP_3547/emrBNAD(P)‑binding oxidoreductase/multidrug transporter permease
Reads supporting (aligned to +/- strand):  ref base T (11/8);  new base G (5/8);  total (16/16)
Fisher's exact test for biased strand distribution p-value = 4.73e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GGGCGAAAAGGTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGTTCCCTCGCTCCGGGCTTGCTCCCGGGA  >  NC_002947/4022474‑4022758
                                                                                                                                                |                                                                                                                                            
gggCGAAAAGGTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTgg                                                                                                                                            <  3:155174/147‑1 (MQ=255)
     aaaaGGTGAGTCATCGTCGCCATCGGATACGGACGGTTGGGTGAGTCAAATCAGACGAGTTCTCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCAGATCGAGTAGGTATTCATTCACGGAGGGGGCGCATa                                                                                                                                      <  8:142913/148‑1 (MQ=17)
     aaaaGGTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATa                                                                                                                                      <  3:146487/148‑1 (MQ=255)
          gTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCAc                                                                                                                                 <  1:98252/148‑1 (MQ=255)
          gTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCAc                                                                                                                                 <  4:128973/148‑1 (MQ=255)
          gTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCAc                                                                                                                                 >  7:40689/1‑148 (MQ=255)
            gAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCAcct                                                                                                                               <  6:53988/148‑2 (MQ=255)
                cAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGTATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTcc                                                                                                                           <  1:145008/148‑1 (MQ=255)
                            cGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTAcggcg                                                                                                               >  4:96590/1‑148 (MQ=255)
                              cAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTAcggcgg                                                                                                              <  2:87751/147‑1 (MQ=255)
                              cAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTAcggcgg                                                                                                              <  3:45995/147‑1 (MQ=255)
                              cAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGACACCCTTCCGCCCTTACGGCggg                                                                                                             >  1:152408/1‑148 (MQ=255)
                              cAAACGGACGGTTCGCTGAGGCAAAACAGACGAGTGCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGGGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTAcggcgg                                                                                                              <  7:80714/147‑1 (MQ=255)
                                    gacggTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTACGGCGGGTCACtt                                                                                                       >  3:88521/1‑148 (MQ=255)
                                       ggTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTACGGCGGGTCACttttt                                                                                                    <  6:176079/148‑1 (MQ=255)
                                       ggTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACttttt                                                                                                    <  8:146246/148‑1 (MQ=255)
                                            gCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCaa                                                                                               >  6:132009/1‑148 (MQ=255)
                                                 gTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAAcgc                                                                                           <  7:7252/147‑1 (MQ=255)
                                                  tCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGGATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCAACTTTACGCCCTTAAGGCGTGTCAATTTTTGTCAAAcgcg                                                                                          >  7:147215/1‑147 (MQ=14)
                                                  tCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAAcgcg                                                                                          >  5:130963/1‑147 (MQ=255)
                                                  tCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGa                                                                                         <  4:88521/148‑1 (MQ=255)
                                                      aaCAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACaa                                                                                      >  3:76871/1‑147 (MQ=255)
                                                        cAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGCGTAGGTATTCATTCGCGCAGGGGGCGCATAGTCACCTTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACaaaaa                                                                                   <  7:134029/148‑1 (MQ=255)
                                                                                          ttcttgcttcttgGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGcc                                                 >  3:148146/1‑148 (MQ=39)
                                                                                             ttgcttcttgGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCt                                              >  7:32231/1‑148 (MQ=39)
                                                                                                    ttgGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTAc                                       >  5:9079/1‑148 (MQ=39)
                                                                                                            gggCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCggg                               <  6:70928/148‑1 (MQ=39)
                                                                                                               cATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGtt                            >  7:83806/1‑148 (MQ=39)
                                                                                                                      aTCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGTTACCTCGc                     >  5:106246/1‑148 (MQ=255)
                                                                                                                              ggTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGTTCCCTCGCTCCGGGCt             >  3:96857/1‑148 (MQ=255)
                                                                                                                                         aCGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGTTCCCTCGCTCCGGGCTTGCTCCCGgga  >  6:5517/1‑148 (MQ=40)
                                                                                                                                         aCGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGTTCCCTCGCTCCGGGCTTGCTCCCGgga  >  4:86407/1‑148 (MQ=40)
                                                                                                                                                |                                                                                                                                            
GGGCGAAAAGGTGAGTCAGCGTCGCCATCGCAAACGGACGGTTCGCTGAGTCAAAACAGACGAGTTCGCATCTTGCTTCTTGCTTCTTGCTTCTTGCTTCTTGGATGTGGGCATTCACATCGAGTAGGTATTCATTCACGCAGGTGGCGCATAGTCACCCTTCCGCCCTTACGGCGGGTCACTTTTTGTCAAACGCGACAAAAAGTAACCAAAAAACGCTGGCTCCTATCATCCGGCCCCTGCGCTACGCTCCGGGGTTCCCTCGCTCCGGGCTTGCTCCCGGGA  >  NC_002947/4022474‑4022758

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑