Predicted mutation
evidence seq id position mutation freq annotation gene description
RA W3110S.gb 547,831:1 +G 100% pseudogene (251/261 nt)
pseudogene (251/1259 nt)		 ylbE →
ylbE →		 ECK0512:JW0507:b4507; hypothetical protein, N‑ter fragment
ECK0512:JW0508+JW0507:b4572; hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb547,8311.G87.5% 18.1 / ‑2.9 8pseudogene (251/261 nt)
pseudogene (251/1259 nt)		ylbE
ylbE		ECK0512:JW0507:b4507; hypothetical protein, N‑ter fragment
ECK0512:JW0508+JW0507:b4572; hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (0/1);  new base G (7/0);  total (7/1)
Fisher's exact test for biased strand distribution p-value = 1.25e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

GTGGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑G‑GGGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAC  >  W3110S.gb/547767‑547893
                                                                 |                                                               
gtgGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑g‑gggg                                                           <  1:318395/70‑2 (MQ=255)
            cTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGG‑GGGAAGTGAACTTCAt                                               >  1:245988/1‑71 (MQ=255)
             tGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGG‑GGGAAGTGAACTTCAtt                                              >  1:934442/1‑71 (MQ=255)
                     ggTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGG‑GGGAAGTGAACTTCATTCCTTGTCa                                      >  1:1105183/1‑71 (MQ=255)
                              aaaGATGAAGCGCAGGCGCTGGCAATACTGGAGGAGG‑GGGAAGTGAACTTCATTCCTTGTCACCATGTGaa                             >  1:672252/1‑71 (MQ=255)
                                aGATGAAGCGCAGGCGCTGGCAATACTGGAGCAGG‑GGGAAGTGAACTTCATTCCTTGTCACCATGTGAATg                           >  1:802225/1‑71 (MQ=255)
                                    gAAGCGCAGGCGCTGGCAATACTGGAGCAGG‑GGGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGt                       >  1:949209/1‑71 (MQ=255)
                                          cAGGCGCTGGCAATACTGGAGCA‑GTGGGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGcc                 <  1:665507/71‑1 (MQ=255)
                                                         cTGGAGCAGG‑GGGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAc  >  1:1057634/1‑71 (MQ=255)
                                                                 |                                                               
GTGGGCGCATGTCTGTTCGAAGGTTGGGCGAAAGATGAAGCGCAGGCGCTGGCAATACTGGAGCA‑G‑GGGAAGTGAACTTCATTCCTTGTCACCATGTGAATGCCGTCGGGCCAATGGGCGGTATTAC  >  W3110S.gb/547767‑547893

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑