Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24406,126,3980AT32.6% 58.6 / 12.4 52H430Q (CAT→CAA) copA_4Copper resistance protein A
Reads supporting (aligned to +/- strand):  ref base A (14/17);  new base T (6/9);  total (22/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

CAGCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATAC  >  KT2440/6126265‑6126528
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cAGCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCGGCCGTGGTCCATCGCCCCCAGTTTGCTTTGCTCAATACCGGCCAGGCTGCCGTgg                                                                                                                                 >  5:40203/1‑137 (MQ=17)
cAGCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCGATCACAGCCATTTTGCTGTTATCCATGCCGGCCATGCGGCCATgg                                                                                                                                 >  7:410473/1‑137 (MQ=255)
cAGCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCTCAGCCATTTTGATTTTATCAAAGCAGCACATGCTGCAAttg                                                                                                                                 >  8:137711/1‑135 (MQ=17)
     aTCTTGCTATGGTCCATATCGGCCATGCCGCCTTTGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCAt                                                                                                                            <  7:436170/137‑1 (MQ=255)
       cTTTCTATGGTCCAGATCGGCCATGCCGCATTGGTCCATCCCAGCCCTCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTCTGATCCATGCCGGCCATGCTGCCATGGTCCATcc                                                                                                                          <  8:410473/137‑1 (MQ=18)
       cTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATcc                                                                                                                          <  4:398595/137‑1 (MQ=255)
          gCTCTGGTCCATCTCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGGGGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATCCCGGCCATGTTGCCGTGGTCCATgccgg                                                                                                                       <  8:126921/137‑3 (MQ=11)
          gCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCGGCCGTGGTCCATCTCAGCCATTTTGATGTGATCCATGCCGGCCATGATGCCTTGGTCCagcgctg                                                                                                                       >  1:125753/1‑131 (MQ=17)
                gTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCACAGCCAATTTGCTGTGCTCCATGCCGGCCATGCTGCCCTGGTCCATCCCAGCCAttt                                                                                                                 >  3:32157/1‑137 (MQ=17)
                 tCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  5:162172/137‑1 (MQ=255)
                 tCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  3:350557/137‑1 (MQ=255)
                 gccATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  2:10747/136‑1 (MQ=255)
                   cATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGATGTTATCCATGCCGGCCATGCTGCAATGTTCCATCACAGCAATTTTgg                                                                                                              >  8:436170/1‑136 (MQ=17)
                        cGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCTCAGCCCTTTTGCTGTGCTCCATGCCGGGCATGGTGCCATGGTACATACAAGCCATGTTGCTgggg                                                                                                         >  5:363482/1‑137 (MQ=17)
                        cGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCGCCGCCATTTTGCTGTGATCCATGCCGGCCATGCTCCCATGGTCCATCCCAGCCTTTTTTATGTgg                                                                                                         >  7:431804/1‑137 (MQ=17)
                             aTGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCTGCCGTGGTCCATCGCAGCCATTTTGCTGTGGTCCATGCCGGCCAAGCTGCCATGGTCCATCCCCGACATTTTGCTGTGGTCCAt                                                                                                    >  7:365539/1‑137 (MQ=14)
                             aTGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCTCAGCCATTTTGGTGTGATCAATGCAGGCCATGATGCCTTGGTCAATCCGAGGAATATTGATGTGGTcaaa                                                                                                    >  6:22414/1‑134 (MQ=17)
                                   ccTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGTTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCggg                                                                                              >  5:466461/1‑136 (MQ=255)
                                   ccTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATTCCGGCCATGCTGCCTTGGTCCATACCAGCCATTTTGCTGTGGTCCATGCCggg                                                                                              >  7:360396/1‑136 (MQ=255)
                                      tGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCGCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCTTGGTCGATACCAGCCATTTTGCGGTGGTCCATTCCgggctt                                                                                           >  2:65874/1‑133 (MQ=14)
                                        atCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCACAGCCATTTTGCTGTGATCCATTCCGGCCATGCTGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCAATGCCGCACATGt                                                                                         >  6:178399/2‑137 (MQ=14)
                                         tCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGtt                                                                                        <  3:391853/137‑1 (MQ=255)
                                          ccATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTg                                                                                       <  8:40057/137‑1 (MQ=255)
                                                       gttGCTGTGCTCCATCCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGCTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATcc                                                                          <  6:466461/136‑1 (MQ=255)
                                                       cTTGCTGTGGTCCATGCCGGCCTTGCCGCCGTCGTCCATCTCATCCATATTGCTGTGCTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATcc                                                                          <  5:372207/137‑1 (MQ=17)
                                                                 tcccttccGGCCATGCCGCCGTGGTCCTTCTCAGCCATTTTGCTGTGTTCCATGACGGCCATGCTGCCATGGGCCATCCCAGCCATTTTGCTGTGGTCCATGCCTGTCATGTTGCCGTGGTCCATCCCAGCCAtttt                                                                <  5:149915/131‑1 (MQ=17)
                                                                 tcccttccGGACATGACGCCGTGGTCCATCTCATCCTTTTTGCTGTGGTCCATGTCGGCCATGCTGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCAtttt                                                                <  2:235384/131‑1 (MQ=14)
                                                                 tCCATGCCGGCCATGAGGCCGTCGCCAATCTCTTCCATTTTGCTCTGGTCGTTCTCGGCCATGCTGCCGTGGTCCATCCCAGACATTTTGCTGTGGTCCATGCCGGTCATGTAGCCGTGGTCCATCCCAGCCAtttt                                                                <  6:132201/137‑1 (MQ=11)
                                                                 gccATTCCGGCGATGCCGCCTTGGTCCTTCTCACCCATCTTTCTGTGCTCCATGCCGGCCATGCTGCCTTTGTCCATCCCAGCCATATTGCTGTGGTCCATGCCGGTCATGATGCCGTGGTCCATCCCAGCCAtttt                                                                <  6:363482/136‑1 (MQ=14)
                                                                 cccATCCCGGCCAAGCCGCCGTGGTCCATCGCAGCCATTTTGCTTTGATCCATGCCGGCCATGCTGCCTTTGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGATGCCGTGGTCCATCCCAGCCAtttt                                                                <  1:147273/136‑1 (MQ=14)
                                                                       cccgCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGCTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCtgtg                                                          <  7:323316/134‑1 (MQ=255)
                                                                              tGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGCTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTATGCATTGGTCCATg                                                   >  3:116155/1‑137 (MQ=255)
                                                                              tGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCAATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATACCCGCCATGTTGGTGTGGTCAAtt                                                   >  4:397297/1‑136 (MQ=17)
                                                                                  gccgTGGTCCATCTCAGCCATTTTGCTGTGGTCCATGCCGGCCATGATGCCATGGTCCATCCCAGCCATTATGCTGTGGTGCATGCCGGTCTGGTTGAGGTTGTACATACCCGGCGTTTTGCATTGGTCAAAGCCgg                                               >  2:387739/1‑137 (MQ=9)
                                                                                  gccgTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                >  4:84235/1‑72 (MQ=255)
                                                                                  gccgTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  3:84235/72‑1 (MQ=255)
                                                                                  gccgTGGTCCATCCCAGCCATGTTGCTGTGCTCCATGCCCGCCATGCTGCCCTGGGCCATCCCAGCCATTTTGCTGTGGTCGATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCgg                                               <  4:228653/137‑1 (MQ=14)
                                                                                    cttGGTCCATCTCAGCCTTTTTGCTGTGATCCATGCCGGCCATGCCGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGGCATGCTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGcc                                             <  5:22414/135‑1 (MQ=14)
                                                                                    cgTGGTCCATCTCAGCCATTTTGCTGTGCTCCATGCCGGCCATGCTGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGGCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGcc                                             <  2:260504/137‑1 (MQ=255)
                                                                                          ccATCCCAGCCATGTTGCTGTGTTACATTCCGGCCCTGCCGCCTTGGTCGATCCCTGCCATTTTGCTGTGGGCCATTCCTGTCATGACGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTg                                       <  4:296973/137‑1 (MQ=11)
                                                                                                          gCTGTGATCCATGCCGGCCATGCTGCCTTGGTCCATCCCAGCCATTTTGCGGTGGTCCATACCGGTCATATTGAATTGGTCGATACCCGCCTTATTGCAGTGGTGCATACCGGCATGGTTGCCGTGGGACATcaaga                       >  4:276726/1‑133 (MQ=2)
                                                                                                            ggtgCTCCATGCCGGAGATGCTGCAATTGTCCATCCCAGCCATTTTGCTCTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCACAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGcc                     <  1:415112/136‑1 (MQ=14)
                                                                                                                 tctaTGCCCGCCATGCGGCCGTCGTCCATCCCATCCATTTTGCTGTGGTCCATGCCGGCCATGCTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCAtttt                <  5:53229/134‑1 (MQ=11)
                                                                                                                  ccATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTg               <  1:253576/137‑1 (MQ=255)
                                                                                                                   cATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGtt                                                                                        <  2:69271/63‑1 (MQ=255)
                                                                                                                   cATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGtt                                                                                        >  1:69271/1‑63 (MQ=255)
                                                                                                                      cgcgtccATGCTGCCTTCGTCCAACGCCTCCCTTGTGCTTTTGTCCATGCCGGCCATGAGGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGCTGCCGTGGTCCATCCCAGCCATTTTGCtgt           <  4:85755/132‑1 (MQ=11)
                                                                                                                      cccGGCCATGCAGCCTTGTTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGATGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCtgt           <  5:243942/136‑1 (MQ=11)
                                                                                                                        cGGCCATGCTGCCATGGTCTATCCCAGCCATTTTGCTGTGGTCCATGc                                                                                                  >  2:418359/1‑48 (MQ=255)
                                                                                                                        cGGCCATGCTGCCATGGTCTATCCCAGCCATTTTGCTGTGGTCCATGc                                                                                                  <  1:418359/48‑1 (MQ=255)
                                                                                                                             aTGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCGGTGGTCCATCCCCGCCATTTTGCTTTGGTCAAt    >  1:62340/1‑137 (MQ=255)
                                                                                                                               gcggcCTTGGTCCATCCCAGCCATGTTGCTGTGGTCCATGTCGGTCATGCTGGCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATAc  <  7:232644/134‑1 (MQ=14)
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CAGCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATAC  >  KT2440/6126265‑6126528

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑