Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,305,054 C→T 9.7% D115N (GAC→AAC)  livM ← branched‑chain amino acid ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,305,0540CT 9.7% 110.4 / 2.9 41D115N (GAC→AAC) livMbranched‑chain amino acid ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base C (14/23);  new base T (2/2);  total (16/25)
Fisher's exact test for biased strand distribution p-value = 6.37e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.76e-01

CAGCCCAGGTAATGCGAGAGCATGGCGTAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCGGGGGGATCAGCTTGCGATCCGATCGGCGGCCCATCAC  >  NC_002947/1304906‑1305198
                                                                                                                                                    |                                                                                                                                                
cAGCCCAGGTAATGCGAGAGCATGGCGTAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTc                                                                                                                                                  <  6:15214/149‑1 (MQ=255)
   cccAGGTAATGCGAGAGCATGGCGTAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGAc                                                                                                                                               <  6:195253/149‑1 (MQ=255)
      aGGTAATGCGAGAGCATGGCGTAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGc                                                                                                                                            <  7:244003/149‑1 (MQ=255)
              cGAGAGCATGGCGTAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACgag                                                                                                                                    <  6:145624/149‑1 (MQ=255)
                           tAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACgg                                                                                                                       <  7:41952/149‑1 (MQ=255)
                                   ggCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCa                                                                                                               <  8:112526/149‑1 (MQ=255)
                                               aTAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGa                                                                                                   <  6:301311/149‑1 (MQ=255)
                                               aTAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGa                                                                                                   >  7:269875/1‑149 (MQ=255)
                                               aTAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGa                                                                                                   <  7:232599/149‑1 (MQ=255)
                                                   aaGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCaa                                                                                               >  5:78214/1‑149 (MQ=255)
                                                   aaGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGCCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCaa                                                                                               <  8:52956/149‑1 (MQ=255)
                                                       ccACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAAccc                                                                                            >  1:42799/1‑148 (MQ=255)
                                                           gTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCTATGTCGACCGCACCCCGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCGgatga                                                                                       >  8:262389/1‑149 (MQ=255)
                                                                cGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACa                                                                                  >  3:188194/1‑149 (MQ=255)
                                                                cGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACa                                                                                  >  6:143173/1‑149 (MQ=255)
                                                                     tCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCATGATCAGCGTGGCAATGTCGACCGCACAACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAgc                                                                              <  7:236930/148‑1 (MQ=255)
                                                                         gCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTgg                                                                         <  8:179618/149‑1 (MQ=255)
                                                                            ggCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTc                                                                      <  6:66801/149‑1 (MQ=255)
                                                                             gCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCt                                                                     <  8:209234/149‑1 (MQ=255)
                                                                              cccGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACAGGTAGATCAGGATCAGCGTGGCTATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCTCCACGATCAACCCGATGTTGACATAGAGCTGGGTCtt                                                                    <  8:93871/149‑1 (MQ=255)
                                                                              cccGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTTGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGa                                                                                                   >  4:310351/1‑118 (MQ=255)
                                                                              cccGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTTGACCGCACCACGACAGCCGAAGAACGGCCATACCAGTGCCACCACGa                                                                                                   <  3:310351/118‑1 (MQ=255)
                                                                                  ccAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTggg                                                                 >  6:216239/1‑148 (MQ=255)
                                                                                    aGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTTGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAg                                                              >  4:89526/1‑149 (MQ=255)
                                                                                     gaccgaccACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAgg                                                             <  8:269875/149‑1 (MQ=255)
                                                                                          accACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTACCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAg                                                        >  6:124016/1‑149 (MQ=255)
                                                                                            cACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCTTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAgg                                                       >  3:23588/1‑148 (MQ=255)
                                                                                            cACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACCGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGCTCTTGGGCAGGGTGacg                                                       >  5:316739/1‑146 (MQ=255)
                                                                                             aCGATATTGAGGGCCAGGCCCAGCATCTCGTAGATCAGGATCAGCGTGGCAATGTCGACGGCACCTCGAGAGCCGAAGAACGGGCATACCAGTGCGACCACGATCTACCCGATGATGAGATAGCGCTGGGTCTTGGGCAGGGTGAGGTa                                                     <  6:316739/149‑1 (MQ=255)
                                                                                              cGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAg                                                    <  4:188194/149‑1 (MQ=255)
                                                                                               gATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGt                                                   <  6:78214/149‑1 (MQ=255)
                                                                                                atatTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGtt                                                  <  5:216239/149‑1 (MQ=255)
                                                                                                               cccagCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCggggg                                   <  4:23588/149‑1 (MQ=255)
                                                                                                                ccagCGACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAg                                                        >  2:197434/1‑127 (MQ=255)
                                                                                                                     aaCACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCggg                                     <  6:315654/141‑1 (MQ=255)
                                                                                                                     aaCACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCggg                                     >  5:315654/1‑141 (MQ=255)
                                                                                                                          gTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCgg                                      >  5:32855/1‑135 (MQ=255)
                                                                                                                          gTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCgg                                      <  6:32855/135‑1 (MQ=255)
                                                                                                                             gatcaggatcagCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTACCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCGGGGGGATCAGCTTGcgat                     <  5:124016/149‑1 (MQ=255)
                                                                                                                               tcaggatcagCGTGGCAATGTTGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCGGGGGGATCAGCTTGcgatcc                   <  3:89526/149‑1 (MQ=255)
                                                                                                                                            ggCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCGGGGGGATCAGCTTGCGATCCGATCGGCGGCCCa      <  5:143173/149‑1 (MQ=255)
                                                                                                                                                aTGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCGGGGGGATCAGCTTGCGATCCGATCGGCGGCCCATCAc  >  2:73679/1‑149 (MQ=255)
                                                                                                                                                    |                                                                                                                                                
CAGCCCAGGTAATGCGAGAGCATGGCGTAGCTGTAGGCACCGACGGCATAGAAGCCCACGTAGCCGAGGTCGAGCAGGCCCGCCAGACCGACCACGATATTCAGGCCCAGGCCCAGCAACACGTAGATCAGGATCAGCGTGGCAATGTCGACCGCACCACGAGAGCCGAAGAACGGCCATACCAGTGCCACCACGATCAACCCGATGATGACATAGCGCTGGGTCTTGGGCAGGGTGAGGTAGTTGCTGACTGCCGGGGGGATCAGCTTGCGATCCGATCGGCGGCCCATCAC  >  NC_002947/1304906‑1305198

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑