Predicted mutation
evidence seq id position mutation freq annotation gene description
RA KT2440 6,126,398 A→T 23.8% H430Q (CAT→CAA)  copA_4 ← Copper resistance protein A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*KT24406,126,3980AT23.8% 70.5 / 2.8 48H430Q (CAT→CAA) copA_4Copper resistance protein A
Reads supporting (aligned to +/- strand):  ref base A (10/22);  new base T (4/4);  total (22/26)
Fisher's exact test for biased strand distribution p-value = 4.16e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATAC  >  KT2440/6126267‑6126528
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gCCATCTTGCTATGGTCAATATCGTCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATgg                                                                                                                                 <  5:99951/135‑1 (MQ=255)
        gCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCGCAGCCATTTTGATGTGCTCCATGCCGGCCATGGTGCCCTGGTCCATccc                                                                                                                         >  3:90124/1‑135 (MQ=17)
            tGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGcc                                                                                                                     <  8:62806/135‑1 (MQ=255)
                ccttatCCGCCATGCCGCCTTGGTCCATCCCAGCGATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCCGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  7:95089/133‑1 (MQ=255)
                ccATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  8:23952/136‑1 (MQ=255)
                 cATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCAtttt                                                                                                                <  6:193955/135‑1 (MQ=255)
                  atatCGGCCATGCCGCCTTGGTCCATACCAGCCATGTTGCTGTGGTCCATGCCGGCCATGAAGCCGTGGTCCATAACCGCCATTGTGCAGTGATCCATACCGGCCATGATGCCTTGGTCCATCCCAGCCCtttat                                                                                                               >  4:107686/1‑133 (MQ=14)
                      cGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCGGCCGTGGTCCATCGCAGCCAGTTTGCTGTGATCCATGCAGGCCAGGCTGCCCTGGTCCATCCCCGCCTTGTTGcggg                                                                                                           >  4:323958/1‑132 (MQ=17)
                      cGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGACGCCGTGGTCCATCACAGCCATTTTGCTGTGATCCATGCCTGCCATGCTGCCGTGGTCCGTCCCAGGCCTTTTGCtgtg                                                                                                          >  8:412364/1‑136 (MQ=14)
                           aTGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCGGCCGTGGTCCATCGCAGCCATTTTGCTGTGCTCCATGCCGGCCATGCTGCCTTGGTCCATCCCCGCCAATTTGCTGGGGta                                                                                                       >  7:135647/1‑133 (MQ=14)
                           aTGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCCTCGCCGCCATGGTGCTGTGATCCAGGCCGGCCATGATGCCGTGGGCCATGCCAGCCATTTTACCGTGGt                                                                                                        >  2:129294/1‑133 (MQ=14)
                           aTGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCa                                                                                                     >  7:296572/1‑136 (MQ=255)
                           aTGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCACAGCCATTTTGCTGTGATCCATGCCGGGCATGGTGCCGGGGTCCAGCCCCGCCAGTATGAggtggt                                                                                                        >  3:96912/1‑133 (MQ=14)
                           aTGCCGCCTGGGTCCATCCCAGCCATCATGCTGTGGTCCATCCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGCTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTcc                                                                                                      <  4:81127/135‑1 (MQ=255)
                               cgccTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGc                                                                                                  <  1:429596/135‑1 (MQ=255)
                                gccTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCGCCGCCATTTTGCTGTGGTCCATGCCGGCCATGCTGCCTTGGTGCATCCCCGCCAGTTTGCGGTGGTCCATGCCg                                                                                                >  7:193744/1‑136 (MQ=14)
                                 ccTTCGTCCATCCCAGCCATCTTGCTGTGGTCCATGGCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCgg                                                                                               <  7:441590/136‑1 (MQ=255)
                                     ggTCCATCCCAGCCATGTTGCTGTGGTCCATTCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTc                                                                                             <  8:11759/134‑1 (MQ=255)
                                      gTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGAGGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCCGCCATGCTGCCATGGTCAAGCCCCCCCATTTTCCTGTGGTGCAATCCggggag                                                                                           >  1:217709/1‑131 (MQ=14)
                                      gTCCAGACCAGCAATATTGCTGTGGTCCATTCCGGCCATGCCGCCTTGGTCCATCTCAGCCATGTTGCTGTGATCCATGTCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTc                                                                                             <  6:249248/133‑1 (MQ=17)
                                          aTCCCAGCCATAGTGATGTGGGCCATGGCGGCCATGCGGCCGTGGTCCATCTCAGCCATTTTGCTTTGTTCCATGCCGGCCATGCTGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTg                                                                                       <  6:310740/135‑1 (MQ=14)
                                            cccAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGGCCATCACAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCg                                                                                    <  8:297748/136‑1 (MQ=255)
                                              cAGCCATCTTGCTGTGGTCCATGCCGGCCATGCGGCCGTGGTCCATCACCGCCATTTTGCTGTGGTCCATGCCGGCCAGGCTGCCCTGGTCCATCCCCGCCCTGGTGCTGGGGGCCAGGCCGGTCATGTTggagt                                                                                   >  1:376466/1‑131 (MQ=14)
                                              cAGCCATCTTGCTGTGGTCCATGCCGGCCATGCAGCCGTGGTCCATCTCCGCCATTTTGCTGTGCTCCATTCCGGCCATGCTGCCATGGTCCATCCCCGCCAGTTTGCAGTGGTCCAGTCCGGGCAGGTTGCCGt                                                                                   >  3:126128/1‑135 (MQ=14)
                                                   aTCTTGCTGTGGTCCATGCCGGCCATGATGCCGTGGTCCATCACAGCCATTATGCTGTGATCCATACCCGCCATGATTAAGTGGTCCATCCCAGCCAGTGTGCTGTGGTCCATTCCCGACAGGTTGAAGAGGTcc                                                                              >  2:78565/1‑135 (MQ=2)
                                                       tGCTGGGGTCCCTGCCGGCCATGCGGCCGTGGTGCATCTCATCCATTTTGCTGTGCTCCCTGCCTGCCATGCTGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATcc                                                                          <  5:242336/135‑1 (MQ=14)
                                                        gCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCtgt                                                                                                           >  3:320407/1‑101 (MQ=255)
                                                        gCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCtgt                                                                                                           <  4:320407/101‑1 (MQ=255)
                                                         cTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCAt                                                                            <  3:2335/131‑1 (MQ=255)
                                                         cTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATcc                                                                          <  2:21846/133‑1 (MQ=255)
                                                                ccATGCCGGCCATGCCGCCGTGGTCCATCGCAGCCATGTTGCTGTGCTCCATCCCGGCCATGCTGCCATGGTCCATCCCAGCCATGTTGCTGTGGTCCATGCCGGGCATGTTGCCGTGGTCCATCCCAGCCAtttt                                                                <  8:24818/136‑1 (MQ=14)
                                                                  aTGCCGGCCAGGAAGCCGTGGGCCATCTCAGCCATTTTGCTGTGTTCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTTTGGTCCATGCCGGTCATGTAGCCTTGGTCCATCCCAGCCAtttt                                                                <  2:241815/134‑1 (MQ=14)
                                                                           aTGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCTTGGTCCATACCCGCCATGTTTCTTTGGTGCATGGCGGGCATGTGGCCGGGGTCCAGGCCGGCCTTGGTTCTGTGGt                                                        >  6:323272/1‑133 (MQ=19)
                                                                           aTGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGcc                                                                                                                     >  5:29112/1‑72 (MQ=255)
                                                                           aTGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGcc                                                                                                                     <  6:29112/72‑1 (MQ=255)
                                                                                gccgTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGGCATGCTGCCATGGTCCATCCCAGCCATGTTGCTGTGGTCCATCCCGGTGATGTGGCCGGGGGCCGTCCCAGCCAGTGTGCTGTGGTCCGTGcc                                                 >  4:405333/1‑135 (MQ=255)
                                                                                gccgTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATGTTGCTGTGGTCCATACCGGTCATGTTGCCTTGGTCCATCCCAGCCATTTTTCAGTGCTCGATGcc                                                 >  2:316588/1‑135 (MQ=17)
                                                                                         cATCCCAGCCCTCTTGCTGTGCGCCATGCCGGCCATGCGGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGGTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTg                                       <  7:412364/136‑1 (MQ=11)
                                                                                          aTCTCAGCCCTATTGCTGTGTTCCATGGCGGCCTTGCTGCCTTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGGCATGTGGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGtt                                        <  3:323958/134‑1 (MQ=14)
                                                                                              cAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGtt                                                                                        >  2:254691/1‑82 (MQ=255)
                                                                                              cAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGtt                                                                                        <  1:254691/82‑1 (MQ=255)
                                                                                              cAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGACGAGGTCCATCCCAGCCAGGTTCCTGTGGTCGGTGCAGGCGATGTTGGCgg                                   >  5:366570/1‑134 (MQ=14)
                                                                                                                 cATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCAtttt                                                                >  7:102985/1‑87 (MQ=255)
                                                                                                                 cATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCAtttt                                                                <  8:102985/87‑1 (MQ=255)
                                                                                                                 cATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCAtttt                >  3:203888/1‑135 (MQ=255)
                                                                                                                  aTGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGGTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGGTGCCGTGGTCCATCCCAGCCAtttt                <  1:243613/134‑1 (MQ=255)
                                                                                                                  aTGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGCTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCAtttt                <  4:224845/134‑1 (MQ=255)
                                                                                                                               tgcCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATAc  <  4:230391/135‑1 (MQ=255)
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GCCATCTTGCTATGGTCCATATCGGCCATGCCGCCTTGGTCCATCCCAGCCATCTTGCTGTGGTCCATGCCGGCCATGCCGCCGTGGTCCATCTCAGCCATTTTGCTGTGATCCATGCCGGCCATGCTGCCATGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGTCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATGCCGGCCATGTTGCCGTGGTCCATCCCAGCCATTTTGCTGTGGTCCATAC  >  KT2440/6126267‑6126528

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑