Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 4,327,926 C→A 16.1% intergenic (‑180/+145) adiY ← / ← adiA adi system transcriptional activator/arginine decarboxylase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092734,327,9260CA16.1% 73.0 / 3.4 36intergenic (‑180/+145)adiY/adiAadi system transcriptional activator/arginine decarboxylase
Reads supporting (aligned to +/- strand):  ref base C (18/11);  new base A (2/4);  total (20/16)
Fisher's exact test for biased strand distribution p-value = 3.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTCTCGCTAAAGCAAAGCGATACCGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGT  >  CP009273/4327779‑4328068
                                                                                                                                                   |                                                                                                                                               
ttCTCGCTAAAGCAAAGCGATACCGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑a                                                                                                                                               >  2:578632/1‑149 (MQ=255)
              aagcGATACCGGGAAATGGGTATATAATTGTATTATGAATATAAACATGAATAAAAATAACGAGTTATACTAATAGTACAAATTTTTAAAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAAAA‑AAAAAAAAg                                                                                                                                       <  1:349655/143‑1 (MQ=255)
                       cGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTg                                                                                                                              >  1:82560/1‑143 (MQ=255)
                       cGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCcg                                                                                                                        >  2:565173/1‑149 (MQ=255)
                                     ataATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGa                                                                                                          >  2:71062/1‑149 (MQ=255)
                                         ttGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTTCTGTTTAAATAAAAAGA‑AAAAGAAAGCGCGGGGTGGGGCCGCGCAAAAAGTAt                                                                                                            >  1:249258/1‑143 (MQ=255)
                                           gaatgatgAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTAAATATTTTTTCAATGTAACCCTCCTCTGT‑GAAAAAAAGCGCGGGGTGGGGCTGCGCAAAAAGTATGACAtttt                                                                                                    <  2:151169/147‑1 (MQ=255)
                                              tgatgaATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAACAGTATGACATTtttgt                                                                                                 >  2:271768/1‑149 (MQ=255)
                                              tgatgaATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTtttgt                                                                                                 >  2:248707/1‑149 (MQ=255)
                                               gatgaATATAAACATGCATAAAAATAACGGGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAGAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTtttggt                                                                                                >  2:154449/1‑147 (MQ=255)
                                               gatgaATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATATCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAACGCGCGGGGTGGGGCCGCGCAAAAAGTATGACAtt                                                                                                      >  1:57400/1‑143 (MQ=255)
                                                    ataaAAACAAGCATAAAAAAAACGAGTTTTACTAATAGAACAATTATTTATATGATTTTCACTTTAACATATTTTTTAACAGAAAAAAAAACAAAA‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTgcag                                                                                           <  2:243732/149‑1 (MQ=255)
                                                     tataAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTTCAGGTTAAATAACAGGC‑AAAAAAAAGCGCGGGGTGAGGCCGCGCAAAAAGTATGACATTtttgtt                                                                                                >  1:20016/1‑143 (MQ=255)
                                                           caggCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAAtttt                                                                                    <  2:504686/146‑1 (MQ=255)
                                                                   aaaaTAACGAGGTTTACTAATAGTACAAAGTTTTATAGTAATTTCTCATGTAGATATTTTTTTACAGGATAAATAAAAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTa                                                                                  <  1:56416/143‑1 (MQ=255)
                                                                     aaTAACGAGTTTTACTAATAGGACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACg                                                                          <  2:235278/149‑1 (MQ=255)
                                                                       aaaCGAGTTTTACAAATAGAACAAACTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGtt                                                                        <  2:360329/148‑1 (MQ=255)
                                                                         aCGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGc                                                                      >  2:393534/1‑149 (MQ=255)
                                                                                      aTAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTTTTTTTTTTTTAACAGGA‑AAAAAAAAGCGCGGGTTGGGGGCGCGAAAAAAGTATGACATTTTTGTTTTCAGCATTTTTTTTGAAAAAGTTTCCAtgttt                                                               >  1:17860/1‑139 (MQ=255)
                                                                                      aTAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCCAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGCAAACTTTGCCATACTCAAAAgg                                                         >  2:45860/1‑149 (MQ=255)
                                                                                         tgataaaTTTTTATAGGAAGTGCTCGGGTACATATTTTTTTACAGGATAAATAACAGGA‑AAAAAAAAGCGCTGGGGGGGGCCGCGCAAAAAGTATTACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCaaa                                                            <  1:137879/139‑1 (MQ=255)
                                                                                            cAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAgg                                                         >  1:471347/1‑143 (MQ=255)
                                                                                               aTTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGGCTAAGGcc                                                >  2:169220/1‑149 (MQ=255)
                                                                                                         tAATTTCTCATGTACATATTTTTTTACTGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATCCTCAAAAGCCCTAAGGCCAggc                                            >  1:84794/1‑143 (MQ=255)
                                                                                                         tAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAggc                                            >  1:514246/1‑143 (MQ=255)
                                                                                                            tttCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATg                                   <  2:602730/149‑1 (MQ=255)
                                                                                                            tgtctcAGTTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATg                                   <  2:79537/147‑1 (MQ=255)
                                                                                                                 catgaactaacttttttACAGGATAAAAAACAGCA‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGCATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTAtt                              <  2:77299/138‑1 (MQ=255)
                                                                                                                 cATGTACATATTTTTTTACAGAATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTAtt                              <  2:462549/149‑1 (MQ=255)
                                                                                                                     tACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTaaa                          <  2:362446/149‑1 (MQ=255)
                                                                                                                     tACATATTGTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTa                                <  1:277119/143‑1 (MQ=255)
                                                                                                                       cATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTAtt                              <  1:220100/143‑1 (MQ=255)
                                                                                                                        atatTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCGGGCTGCGTAATGTTGttt                             >  1:234914/1‑143 (MQ=255)
                                                                                                                                    aGGATAAATAACAGGCAAAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGGATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACg                  >  1:101557/1‑143 (MQ=255)
                                                                                                                                    aGGATAAATAACAGGC‑AAAAAAAAGCGCGGCGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCCAAGGGCATAAGGCCAAGCGGCGTAATGTTATTGAAACAATTAGGc                 >  1:392067/1‑143 (MQ=255)
                                                                                                                                             aaCAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGt  <  2:92369/149‑1 (MQ=255)
                                                                                                                                                   c‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGGATGACATTGTTGTTTGCAGCAATTTTTATGAAACCGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGt  <  1:138693/143‑1 (MQ=255)
                                                                                                                                                   |                                                                                                                                               
TTCTCGCTAAAGCAAAGCGATACCGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGT  >  CP009273/4327779‑4328068

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑