Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,991,844 A→G 16.0% M90T (ATG→ACG)  hcpC‑I ← hemolysin‑coregulated protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,991,8440AG16.0% 53.4 / 4.1 25M90T (ATG→ACG) hcpC‑Ihemolysin‑coregulated protein
Reads supporting (aligned to +/- strand):  ref base A (9/12);  new base G (2/2);  total (11/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.78e-01

GTTTTCATTGTCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTCCTGAA  >  NC_002947/2991702‑2991991
                                                                                                                                              |                                                                                                                                                   
gTTTTCATTGGCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGcc                                                                                                                                              >  2:275166/1‑150 (MQ=25)
 ttttCATTGTCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCg                                                                                                                                             >  1:613982/1‑150 (MQ=35)
   ttCATTGTCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGtt                                                                                                                                           >  2:417174/1‑150 (MQ=37)
      aTTGTCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGc                                                                                                                                        >  2:138086/1‑150 (MQ=38)
          tCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGt                                                                                                                                    <  2:613982/150‑1 (MQ=39)
                      gCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATc                                                                                                                        <  2:617906/150‑1 (MQ=39)
                         tGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAgg                                                                                                                     <  1:275166/150‑1 (MQ=38)
                          ggggAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATCCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAggg                                                                                                                    <  1:207994/150‑1 (MQ=38)
                                    ggTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCttt                                                                                                          <  1:426250/150‑1 (MQ=39)
                                          gATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTTACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAg                                                                                                    <  1:370469/150‑1 (MQ=38)
                                           aTGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGTGGGGTAGCTTTGTTCAGt                                                                                                   <  1:143033/150‑1 (MQ=38)
                                               tGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAAc                                                                                               >  2:248910/1‑150 (MQ=39)
                                                        tggCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCGTTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCttt                                                                                                          <  2:767045/130‑1 (MQ=255)
                                                        tggCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCGTTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCttt                                                                                                          <  2:766455/130‑1 (MQ=255)
                                                        tggCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCGTTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCttt                                                                                                          >  1:767045/1‑130 (MQ=255)
                                                        tggCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCGTTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCttt                                                                                                          >  1:766455/1‑130 (MQ=255)
                                                                             tgAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCt                                                                 <  2:298090/150‑1 (MQ=38)
                                                                             tgAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCt                                                                 <  1:417174/150‑1 (MQ=38)
                                                                                          ttGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTg                                                    >  1:326280/1‑150 (MQ=39)
                                                                                            gTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGAc                                                  <  2:326280/150‑1 (MQ=38)
                                                                                                gCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGTCTTATGCACGCGCTGGCCACTCGGTTGACCGct                                              >  2:188579/1‑150 (MQ=38)
                                                                                                    tCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTgg                                          <  1:188579/150‑1 (MQ=38)
                                                                                                      cgatgaGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATGAATGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTgggg                                        <  1:138086/150‑1 (MQ=255)
                                                                                                                              cTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATg                >  1:30108/1‑150 (MQ=35)
                                                                                                                                       tGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTc       >  1:566012/1‑150 (MQ=32)
                                                                                                                                            gcaTTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTTCTGaa  <  2:30108/150‑1 (MQ=17)
                                                                                                                                              |                                                                                                                                                   
GTTTTCATTGTCTTTGTCGAGTGCGTGGGGAAGCACGGTATTGATGCTGACGATGGTGGCGTCTTCGAGCGTGGTGGTGAAAAAATGCTCTTGTTTGCCTTCCGACGAGGTGCGATACCAGCTGACCTCGACCGTTGGCAGCATTTCGCCGTTGGCAAGTGCCTGATACATCAGGGGGGTAGCTTTGTTCAGTGAACTGGTGAATATGAAAGGCTTATGCACGCGCTGGCCACTCGGTTGACCGCTCTGGGGGTCAGTGGGCGTAGTCACCTCATGCTTGATTTCCTGAA  >  NC_002947/2991702‑2991991

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑