Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*AE015451_phaM15,223,0130CA53.5% ‑5.6 / 46.5 43L428F (TTG→TTT) PP_4603 CDS (transposase)
Reads supporting (aligned to +/- strand):  ref base C (1/19);  new base A (0/23);  total (1/42)
Fisher's exact test for biased strand distribution p-value = 4.65e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.46e-01
Rejected as consensus: E-value score below prediction cutoff.
Rejected as consensus: Frequency below/above cutoff threshold.

GAAGGGCTGGGTGATCTCTCATCAAACAAAATGCAACCCATTGTTTTCTAAGCACTCAAGCGGCCACCAGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATGG  >  AE015451_phaM1/5222913‑5223140
                                                                                                    |                                                                                                                               
gaggggTTGGGGGATCTCTCATAAAAAAAAATAAAACCCATTGTTTTCGAAGCACCAAAGCGGCCACTGGTTGATACCCCATTTTCTGGGCTTGGCGAAGAAAACCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCg                                                                                             <  1:14610423/134‑1 (MQ=1)
         ggggATCTCTCATAAAAAAAAAGGAAACCCATTGTTTTCGAAGCACTAAAGTGGCCACCAGTGGAGACCCCGTTTTCTGGGTTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCa                                                                                    <  1:9245691/134‑1 (MQ=1)
                tcccataaAACAAANTACAACCCGTTTTTTTNTAAGCACTCAAGCGGCCACCAGTTGATACCCCATTTTCTGGGTTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCtt                                                                             <  2:4990526/134‑1 (MQ=1)
                tcccataaAAAAAAATGCAACCCGTTTTTTTCTAAGCACCCAAGCGGCCACCAGTTGATCCCCCATTTTCTGGGTTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCtt                                                                             <  1:3991955/134‑1 (MQ=1)
                tcccataaAAAAAAATAAAACCCGTTTTTTTCGAAACACTAAAGTGGCCACCGGTGGATACCCCGTTTTTTGGGTTTGGCGAAAAAAATCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCtt                                                                             <  1:2096237/134‑1 (MQ=0)
                tcccaccaaacaaaATACAACCCATTTTTTCCTAAACACTCAAGCGGCCACCATTTGATACCCCATTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCtt                                                                             <  1:9594920/131‑1 (MQ=1)
                cctaatcaAACAAAATGCAACCCATTGTTTTCTAAACACTCAAGCGGCCACCAGTGGATACCCCAGTTTCCGGNCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCtt                                                                             <  1:17193381/133‑1 (MQ=0)
                   aataaaacaaaATGCAACCCATTGTTTTCGAAGCACTAAAGCGGCCACCAGTTGATACCCCATTTTCTGGGCTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGtt                                                                          <  2:748615/133‑1 (MQ=1)
                          aaagaTGAAACCCATTTTTTTCGAAACACTCAATCGGCCACCGGTGGGTACCCCATTTTCCGGGTTTTGAGAAGAAAGCCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATa                                                                   <  1:4750312/133‑1 (MQ=1)
                                        tttttttCTAAGCACTCAAGCGGCCACCATTTGATACCCCGTTTTCCGGGTTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:8643858/134‑1 (MQ=1)
                                        tttttttCTAAGCACTCAAGCGGCCACCAGTTGATACCCCATTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCNGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:17166977/134‑1 (MQ=0)
                                        tttttttCTAAGCACTCAAGCGGCCACCAGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  2:6974632/134‑1 (MQ=1)
                                        tttttttCTAAACACACAAGCGACCACCAGGTGACCCCCCATTTTCCGGGCTTGGAAAAAAAAAACCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:4850971/134‑1 (MQ=1)
                                        tttttttCGAAGCACTCAAGCGGCCACCGTTGGATACCCCGGTTTTTGGGTTTGGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:1549242/134‑1 (MQ=1)
                                        tttttttCGAAGCACTCAAGCGGCCACCAGTTGATACCCCATTTTCCGGGCTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:11544771/134‑1 (MQ=0)
                                        tttttttCGAAGCACCCAAGTGGCCACCGTTTGATCCCCCGTTTTCCGGGCTTGGCAAAGAAAACCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:2488446/134‑1 (MQ=1)
                                        tttttttCGAAACACTAAAGTGGCCACCGGTTGATACCCCGTTTTCTGGGTTTGGCGAAAAAAATCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTgg                                                     <  1:2876001/134‑1 (MQ=1)
                                          gtgttCTAAGCACTCAAGCGGCCACCAGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGtt                                                   <  2:3720343/134‑1 (MQ=1)
                                          gtcttCTAAGAACTCAATCGGCCACCATTTGATACCCTAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCTGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGtt                                                   <  2:8833605/134‑1 (MQ=1)
                                           tttgcgaaGCACTCAAGCGGCCACCAGTTGATACCCCAGTTTCTGGGTTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTa                                                  <  2:1447187/131‑1 (MQ=1)
                                             ttttAAGCACTCAAGCGGCCACCAGTTGATACCCCGGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAAc                                                <  1:15831503/134‑1 (MQ=1)
                                              tcgaaGCACTCAAGCGGCCACCAGTTGATACCCCGGTTTCCGGGTTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACa                                               <  1:12361065/134‑1 (MQ=0)
                                              tcgaaGCACTCAAGCGGCCACCAGTTGATACCCCAGTTTCTGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACa                                               <  1:3311570/134‑1 (MQ=1)
                                              tcgaaGCACTCAAGCGGCCACCAGTGGATACCCCGGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACa                                               <  1:3311571/134‑1 (MQ=0)
                                              tcgaaGCACTAAAGCGGCCACAAGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACa                                               <  1:15293227/134‑1 (MQ=0)
                                              tcgaaGCACCCAAGCGGCCACCAGTTAATACCCCAGTTTCTGGGCTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACa                                               <  1:12361097/134‑1 (MQ=1)
                                                gaaacACTAAGGCGGCCACCAGTTGATACCCCGTTTTCTGGGCTTGGAGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAgg                                             <  1:15401386/133‑1 (MQ=1)
                                                gaaacACTAAAGCGGCCACCAGTGGACACCCCGGTTTCGGGGCTTGGAGAAAAAAACCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAgg                                             <  1:6908216/133‑1 (MQ=1)
                                                          atcgaccaccgGTTGATACCCCAGTTTCCGGGCTTTGCAAAGAAAACCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCa                                   <  1:15036018/132‑1 (MQ=1)
                                                          agtggCCACCAGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCa                                   <  2:11501123/134‑1 (MQ=1)
                                                               cccccaGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTGCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGt                              <  2:11079706/134‑1 (MQ=1)
                                                               ccactggTTGGTACCCCGGTTTCTGGGCTTTGAGAGGAAAATCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGt                              <  1:18167833/131‑1 (MQ=1)
                                                                  ccggTTGATACCCCATTTTCTGGGCTTTGCGAAGAAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGcc                           <  1:12332731/134‑1 (MQ=0)
                                                                      tggacaCCCCATTTTCCGGGCTTGAAGAAGAAAAACCCGGACCTGCCGGTCTTGGCTTCTGGTGTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACt                       <  1:11335026/132‑1 (MQ=1)
                                                                         atcccccAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGAt                    <  1:10724623/134‑1 (MQ=1)
                                                                         atcccccAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGAt                    <  2:10764886/134‑1 (MQ=1)
                                                                                   gtcagggATTGGCGAAGCAAAGACCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTACTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGc          >  2:6854617/5‑137 (MQ=1)
                                                                                          tttggCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATg   <  1:7499321/133‑1 (MQ=1)
                                                                                          ctgtGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATg   <  1:10488392/134‑1 (MQ=1)
                                                                                          ctgtGCGAAGAAAATCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATg   <  1:14070293/134‑1 (MQ=0)
                                                                                           ttggCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATgg  <  2:7394691/134‑1 (MQ=1)
                                                                                           ttggCGAAGAAAACCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATgg  <  1:7047121/134‑1 (MQ=0)
                                                                                           ttggCGAAACAAACCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATgg  <  1:6270195/134‑1 (MQ=0)
                                                                                                    |                                                                                                                               
GAAGGGCTGGGTGATCTCTCATCAAACAAAATGCAACCCATTGTTTTCTAAGCACTCAAGCGGCCACCAGTTGATACCCCAGTTTCCGGGCTTTGCGAAGCAAAGCCCGGACCTGCCGGTCTTGGCTTCTGGTTTCGAACTCCTCAAGACCTTGTTCAACATAAGCCTGCTTCTTGGTTAACAGGTTGTACACCAGACGTGCCAACTGATGCGCAGTGGCCTTGATGG  >  AE015451_phaM1/5222913‑5223140

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑