Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913_3_KO_pgi4,477,4460AT20.7% 61.0 / 10.6 29intergenic (+123/+22)rraB/yjgMprotein inhibitor of RNase E/GNAT family putative N‑acetyltransferase
Reads supporting (aligned to +/- strand):  ref base A (9/14);  new base T (2/4);  total (11/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.13e-01
Rejected as consensus: Frequency below/above cutoff threshold.

GATGACGGAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCG  >  NC_000913_3_KO_pgi/4477303‑4477589
                                                                                                                                               |                                                                                                                                               
gATGACGGAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGttca                                                                                                                                            <  2:12303/149‑3 (MQ=255)
     cGGAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGTTCAACTcg                                                                                                                                       >  1:554503/1‑149 (MQ=255)
       gAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACAcgcg                                                                                                                                     <  1:397656/149‑1 (MQ=255)
         gTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGTTCAACTCGCggg                                                                                                                                   <  2:554503/149‑1 (MQ=255)
              ccACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCAGCGAGTTGAACAAGCGGGCAttt                                                                                                                              >  1:169631/1‑149 (MQ=255)
                   aaTTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGTGTTCAACTCGCGGGCAttcgaaca                                                                                                                         <  1:462875/149‑7 (MQ=39)
                     ttAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTaga                                                                                                                       <  1:386182/149‑1 (MQ=255)
                           gTAGCGTATCAGGCCCAGGTTGGTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTcgc                                                                                                                 <  2:342915/149‑1 (MQ=255)
                                       gCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCa                                                                                                     <  1:353712/149‑1 (MQ=255)
                                            ggTAGTTCCTGCAACCTGGTGAATTAGCAGCCCGGATAAGGCCTTCAATACACATCCGGCATAGAAGAAACAATCTTTTTACAAAATTAAACTCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTca                                                                                                <  1:627619/149‑1 (MQ=255)
                                               agtgcttGCAACCGGGTGAATTTGCAGCACATATAAGGCATTCATGTCCCATTCGTCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCTCGATTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACaa                                                                                             <  2:68970/143‑1 (MQ=255)
                                                   ccTGCAAACTGAAGAATTTGTAGTCTCGACTAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAAAGTTCGACTGCCCCCAATTTGAAATACATATCAGTTTTTTAGAGTACGCGCAACATCCGCACTTCACAATCGa                                                                                         <  1:628131/149‑1 (MQ=255)
                                                                       tAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAgc                                                                     >  1:231780/1‑149 (MQ=255)
                                                                          cccGGATGAGGNATTCATGTCACAGCCNGCATNAACAAAANGTACGTTGTTAATGTTCGAATGCCCGCGAGGTGAACACGCGGGCATTGTCTCAGAGTTCGCGCAACATCCGCCCTTCACAATCGACATGGCCCGTGCAGCCAAGCGCa                                                                  <  1:23242/149‑1 (MQ=255)
                                                                            cGGATAAGGCATTCCTGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATa                                                                <  2:478566/149‑1 (MQ=255)
                                                                                   ggCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGata                                                         >  1:522774/1‑149 (MQ=255)
                                                                                   ggCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGata                                                         >  2:424547/1‑149 (MQ=255)
                                                                                      actCATCTCACATCCGGCCTAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGc                                                      <  2:52583/147‑1 (MQ=255)
                                                                                      aTTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAg                                                                           <  2:590521/128‑1 (MQ=255)
                                                                                      aTTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAg                                                                           >  1:590521/1‑128 (MQ=255)
                                                                                                  tCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCCCAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAACGCCCaac                                          >  1:460438/1‑148 (MQ=255)
                                                                                                       caaaaaCAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGTTACATTTGGGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTc                                     <  1:150446/146‑1 (MQ=255)
                                                                                                            aCAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATaaa                                <  1:424547/149‑1 (MQ=255)
                                                                                                             cAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAg                               >  1:411230/1‑149 (MQ=255)
                                                                                                                         tgttAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCAGTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTc                   <  1:497083/149‑1 (MQ=255)
                                                                                                                              aTGTTCGGATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCGAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTa              >  1:589654/1‑149 (MQ=255)
                                                                                                                                   aaaaTGCCCGCGTGTTCAACTCGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTaa             >  2:58927/3‑145 (MQ=255)
                                                                                                                                   aaaaTGCCCGCGTGTTCAACTCGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTaa             <  1:58927/143‑1 (MQ=255)
                                                                                                                                          ccGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCACTGGCTTCCTTTAAAAAAGCGGTCg  >  1:231419/1‑149 (MQ=255)
                                                                                                                                               |                                                                                                                                               
GATGACGGAGTTCGCCACTAATTAAGCGTAGCGCATCAGGCCCAGGTAGTTCCTGCAACCTGGTGAATTTGTAGCCCGGATAAGGCATTCATGTCACATCCGGCATAAACAAAACGTACGTTGTTAATGTTCGAATGCCCGCGAGTTGAACACGCGGGCATTTTTTTAGAGTTCGCGCAACATCCGCACTTCACAATCGACATGGCCCGTGCAGCCAAGCGCATAGTCGATATGCTCAAAGCCCAAATGCTCATAAAGCGCAATGGCTTCCTTTAAAAAAGCGGTCG  >  NC_000913_3_KO_pgi/4477303‑4477589

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑