Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 1624 250.6 12620048 98.0% 12367647 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,816,555 (G)5→6 coding (55/618 nt) b3646 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,816,5501.G99.6% 712.7 / ‑3.9 222coding (50/618 nt)b3646hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (1/0);  new base G (114/107);  total (115/107)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.16e-01

Only 100 of 255 total aligned reads displayed.

CACAAATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGT  >  NC_000913/3816458‑3816637
                                                                                             |                                                                                       
   aaaTCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggg                                                                                      <  1:5164823/93‑1 (MQ=255)
   aaaTCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggg                                                                                      <  2:3602683/93‑1 (MQ=255)
     aTCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggggg                                                                                    >  1:4948164/1‑93 (MQ=255)
     aTCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggggg                                                                                    >  1:3883786/1‑93 (MQ=255)
     aTCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggggg                                                                                    <  2:6106380/93‑1 (MQ=255)
      tCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑gggggg                                                                                   >  1:3308096/1‑92 (MQ=255)
       cGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggggggc                                                                                  <  2:4644492/93‑3 (MQ=255)
        gCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑ggggggcg                                                                                 >  2:233704/1‑90 (MQ=255)
           aCCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTg                                                                               >  2:2954367/1‑93 (MQ=255)
            cccTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTgg                                                                              >  2:1437241/1‑93 (MQ=255)
             ccTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTggc                                                                             >  1:3145480/1‑93 (MQ=255)
             ccTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTggc                                                                             <  1:2325748/93‑1 (MQ=255)
              cTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTggcg                                                                            >  1:119258/1‑93 (MQ=255)
                 ccAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGcc                                                                         <  1:3653688/93‑1 (MQ=255)
                 ccAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGcc                                                                         <  1:4911025/93‑1 (MQ=255)
                  cagacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCg                                                                        <  1:2053263/93‑1 (MQ=255)
                  cagacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCg                                                                        >  2:5469521/1‑93 (MQ=255)
                  cagacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCg                                                                        >  1:2890754/1‑93 (MQ=255)
                   agacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCgg                                                                       >  2:1602506/1‑93 (MQ=255)
                    gacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGga                                                                      <  2:3177466/93‑1 (MQ=255)
                    gacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGga                                                                      <  1:5950116/93‑1 (MQ=255)
                    gacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGga                                                                      >  1:3016121/1‑93 (MQ=255)
                    gacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGga                                                                      <  1:2552664/93‑1 (MQ=255)
                    gacagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGga                                                                      >  2:4198948/1‑93 (MQ=255)
                     acagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGgac                                                                     >  1:1819545/1‑93 (MQ=255)
                      cagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGgacg                                                                    >  2:1203166/1‑93 (MQ=255)
                      cagaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGgacg                                                                    <  1:465477/93‑1 (MQ=255)
                       agaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGgacga                                                                   <  1:2283091/93‑1 (MQ=255)
                       agaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGgacga                                                                   <  2:4924165/93‑1 (MQ=255)
                        gaTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGgacgac                                                                  <  2:4063400/93‑1 (MQ=255)
                         aTTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGacgacg                                                                 >  1:4884949/1‑93 (MQ=255)
                          tttttAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACgg                                                                <  1:5440818/93‑1 (MQ=255)
                          tttttAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACgg                                                                <  2:6192051/93‑1 (MQ=255)
                          tttttAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACgg                                                                <  2:639370/93‑1 (MQ=255)
                           ttttAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGgc                                                               <  1:567960/93‑1 (MQ=255)
                           ttttAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGgc                                                               <  2:4914260/93‑1 (MQ=255)
                           ttttAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGgc                                                               >  1:3273627/1‑93 (MQ=255)
                               aGGTAGATAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCAt                                                           <  2:4756091/93‑1 (MQ=255)
                               aGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCag                                                           >  2:707735/1‑92 (MQ=255)
                               aGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCAt                                                           >  2:3309748/1‑93 (MQ=255)
                                 ggAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATgg                                                         >  2:390004/1‑93 (MQ=255)
                                   agagaACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGAt                                                       >  1:6231508/1‑93 (MQ=255)
                                    gagaACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATa                                                      >  1:2644826/1‑93 (MQ=255)
                                    gagaACCATGCTGTTACACATTTAGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATa                                                      >  2:5074840/1‑93 (MQ=255)
                                      gaACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACa                                                    >  1:4739599/1‑93 (MQ=255)
                                       aaCCATGCTGTTCCACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACAt                                                   <  2:4407309/93‑1 (MQ=255)
                                        aCCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACAtt                                                  >  1:1069271/1‑93 (MQ=255)
                                        aCCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATCGATACAtt                                                  >  2:5635074/1‑93 (MQ=255)
                                          cATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTg                                                >  2:4315827/1‑93 (MQ=255)
                                           aTGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTgg                                               >  1:5515150/1‑93 (MQ=255)
                                           aTGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTgg                                               >  2:4944016/1‑93 (MQ=255)
                                           aTGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTgg                                               >  2:596936/1‑93 (MQ=255)
                                             gCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCCTGGATACATTTGGCg                                             >  2:486238/1‑93 (MQ=255)
                                             gCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGAGCTTGCGCCCGCGCGACGGCGCATGGATACATTTggtc                                             >  1:925071/1‑91 (MQ=255)
                                              cTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGt                                            >  1:1441162/1‑93 (MQ=255)
                                                gTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGACGGACGACGGCGCATGGATACATTTGGGGTaa                                          >  1:2225511/1‑93 (MQ=255)
                                                 ttACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAat                                         <  1:3100033/93‑1 (MQ=255)
                                                  tACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAatt                                        <  1:707931/93‑1 (MQ=255)
                                                   acacATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAatta                                       <  2:871228/93‑1 (MQ=255)
                                                   acacATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAatta                                       <  2:3534341/93‑1 (MQ=255)
                                                    cacaTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGAGCATGGATACATTTGGCGTAattat                                      >  1:4012266/1‑93 (MQ=255)
                                                     acaTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattatt                                     <  1:1530976/93‑1 (MQ=255)
                                                      caTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattatta                                    <  2:2377453/93‑1 (MQ=255)
                                                      caTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattatta                                    <  1:4234072/93‑1 (MQ=255)
                                                       aTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattattat                                   <  1:2587713/93‑1 (MQ=255)
                                                       aTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattattat                                   >  2:2823383/1‑93 (MQ=255)
                                                       aTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattattat                                   <  2:5576761/93‑1 (MQ=255)
                                                       aTTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAattattat                                   >  1:3660244/1‑93 (MQ=255)
                                                         tttGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTg                                 <  2:5600965/93‑1 (MQ=255)
                                                         tttGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGCAATTATTATTg                                 >  1:3597064/1‑93 (MQ=255)
                                                              aTTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGAcc                            >  1:3946737/1‑93 (MQ=255)
                                                                ttggttggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGc                          >  1:4216252/1‑93 (MQ=255)
                                                                 tggttggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGcc                         >  2:2078977/1‑93 (MQ=255)
                                                                  ggttggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACCGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCa                        >  1:2501567/1‑93 (MQ=255)
                                                                   gttggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCAc                       <  1:1132945/93‑1 (MQ=255)
                                                                      ggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGc                    <  1:5017295/93‑1 (MQ=255)
                                                                      ggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGc                    >  2:1087507/1‑93 (MQ=255)
                                                                      ggCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGc                    >  2:518379/1‑93 (MQ=255)
                                                                         aTTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAAt                 <  2:3440193/93‑1 (MQ=255)
                                                                         aTTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAAt                 <  2:4777171/93‑1 (MQ=255)
                                                                          ttACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAAtt                <  2:2468542/93‑1 (MQ=255)
                                                                           tACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTg               <  1:204129/93‑1 (MQ=255)
                                                                           tACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTg               >  1:2684971/1‑93 (MQ=255)
                                                                           tACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTg               <  1:2794482/93‑1 (MQ=255)
                                                                            aCTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTgg              <  1:271458/93‑1 (MQ=255)
                                                                            aCTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTgg              <  2:4667874/93‑1 (MQ=255)
                                                                              tGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCg            >  1:3780432/1‑93 (MQ=255)
                                                                              tGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCg            >  1:3833561/1‑93 (MQ=255)
                                                                              tGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCg            >  2:2573617/1‑93 (MQ=255)
                                                                               gCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCgg           <  1:1006604/93‑1 (MQ=255)
                                                                               gCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCgg           >  1:1833372/1‑93 (MQ=255)
                                                                                ccGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGa          >  2:4725351/1‑93 (MQ=255)
                                                                                ccGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGa          <  1:6210108/93‑1 (MQ=255)
                                                                                 cGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAg         <  1:823265/93‑1 (MQ=255)
                                                                                 cGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAg         >  2:5822988/1‑93 (MQ=255)
                                                                                   aaGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAggg       >  2:5303446/1‑93 (MQ=255)
                                                                                     gCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTc     <  2:1706542/93‑1 (MQ=255)
                                                                                     gCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTc     >  2:3757892/1‑93 (MQ=255)
                                                                                     gCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTc     >  2:1941228/1‑93 (MQ=255)
                                                                                       cATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGGGGGGCAg   >  1:4356791/1‑93 (MQ=255)
                                                                                             |                                                                                       
CACAAATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGT  >  NC_000913/3816458‑3816637

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCGCGATA  >  NC_000913/3816462‑3816645
                                                                                              |                                                                                          
AATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGG                                                                                            >  SRR4302533.3907484/1‑94 (MQ=60)
AATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGG                                                                                            >  SRR4302533.4978125/1‑94 (MQ=60)
 ATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGG                                                                                           >  SRR4302533.3328522/1‑94 (MQ=60)
   CGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGggg                                                                                         >  SRR4302533.4483647/1‑91 (MQ=60)
   CGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGgcg                                                                                         <  SRR4302533.3206724/94‑4 (MQ=60)
     CTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCT                                                                                        >  SRR4302533.215003/1‑94 (MQ=60)
     CTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCT                                                                                        <  SRR4302533.3669710/94‑1 (MQ=60)
       ACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGG                                                                                      <  SRR4302533.2573123/94‑1 (MQ=60)
       ACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGG                                                                                      >  SRR4302533.2616604/1‑94 (MQ=60)
        CCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGC                                                                                     <  SRR4302533.2384568/94‑1 (MQ=60)
        CCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGC                                                                                     >  SRR4302533.3164819/1‑94 (MQ=60)
         CCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCG                                                                                    >  SRR4302533.553910/1‑94 (MQ=60)
         CCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCG                                                                                    <  SRR4302533.2340148/94‑1 (MQ=60)
         CCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCG                                                                                    >  SRR4302533.120014/1‑94 (MQ=60)
          CTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGG                                                                                   >  SRR4302533.3394708/1‑94 (MQ=60)
            GCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCC                                                                                 >  SRR4302533.1128825/1‑94 (MQ=60)
             CCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCG                                                                                >  SRR4302533.2908523/1‑94 (MQ=60)
             CCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCG                                                                                <  SRR4302533.4940776/94‑1 (MQ=60)
             CCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCG                                                                                <  SRR4302533.3676153/94‑1 (MQ=60)
              CAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGG                                                                               >  SRR4302533.1831389/1‑94 (MQ=60)
              CAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGG                                                                               <  SRR4302533.2065933/94‑1 (MQ=60)
               AGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGA                                                                              >  SRR4302533.3034569/1‑94 (MQ=60)
               AGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGA                                                                              >  SRR4302533.3902773/1‑94 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGNGGCCGGAC                                                                             <  SRR4302533.4251208/94‑1 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             >  SRR4302533.315584/1‑94 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             <  SRR4302533.4414563/94‑1 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             <  SRR4302533.1671641/94‑1 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             >  SRR4302533.1830661/1‑94 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             <  SRR4302533.2568371/94‑1 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             <  SRR4302533.5986101/94‑1 (MQ=60)
                GACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGAC                                                                             <  SRR4302533.4018745/94‑1 (MQ=60)
                 ACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACG                                                                            <  SRR4302533.2798036/94‑1 (MQ=60)
                  CAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGA                                                                           <  SRR4302533.468256/94‑1 (MQ=60)
                   AGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGAC                                                                          <  SRR4302533.2297225/94‑1 (MQ=60)
                   AGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGAC                                                                          <  SRR4302533.6168219/94‑1 (MQ=60)
                   AGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGAC                                                                          <  SRR4302533.3311970/94‑1 (MQ=60)
                    GATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACG                                                                         <  SRR4302533.1423660/94‑1 (MQ=60)
                    GATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACG                                                                         >  SRR4302533.4914543/1‑94 (MQ=60)
                     ATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGG                                                                        >  SRR4302533.5570143/1‑94 (MQ=60)
                     ATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGG                                                                        <  SRR4302533.3909928/94‑1 (MQ=60)
                      TTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGC                                                                       <  SRR4302533.5473585/94‑1 (MQ=60)
                      TTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGC                                                                       >  SRR4302533.3293833/1‑94 (MQ=60)
                       TTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCG                                                                      <  SRR4302533.571320/94‑1 (MQ=60)
                         TTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCA                                                                    >  SRR4302533.2331078/1‑94 (MQ=60)
                            GGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGG                                                                 >  SRR4302533.296668/1‑94 (MQ=60)
                              GAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGAT                                                               >  SRR4302533.6268826/1‑94 (MQ=60)
                               AGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATA                                                              >  SRR4302533.2865568/1‑94 (MQ=60)
                               AGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATA                                                              >  SRR4302533.4244293/1‑94 (MQ=60)
                               AGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATA                                                              >  SRR4302533.673603/1‑94 (MQ=60)
                               AGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATA                                                              >  SRR4302533.2661078/1‑94 (MQ=60)
                                 AGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACA                                                            >  SRR4302533.4768336/1‑94 (MQ=60)
                                 AGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACA                                                            <  SRR4302533.6139678/94‑1 (MQ=60)
                                  GAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACAT                                                           <  SRR4302533.1652992/94‑1 (MQ=60)
                                   AACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATT                                                          >  SRR4302533.1075567/1‑94 (MQ=60)
                                    ACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTT                                                         >  SRR4302533.3681747/1‑94 (MQ=60)
                                     CCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTG                                                        <  SRR4302533.2720238/94‑1 (MQ=60)
                                     CCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTG                                                        >  SRR4302533.4930016/1‑94 (MQ=60)
                                      CATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGG                                                       >  SRR4302533.5548446/1‑94 (MQ=60)
                                      CATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGG                                                       <  SRR4302533.2765460/94‑1 (MQ=60)
                                      CATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGG                                                       <  SRR4302533.2127359/94‑1 (MQ=60)
                                       ATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGC                                                      <  SRR4302533.4045492/94‑1 (MQ=60)
                                       ATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGC                                                      >  SRR4302533.4982986/1‑94 (MQ=60)
                                       ATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGC                                                      >  SRR4302533.5120435/1‑94 (MQ=60)
                                        TGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGAGCTTGCGCCCGCGCGACGGCGCATGGATACATTTGGtc                                                     >  SRR4302533.930502/1‑92 (MQ=60)
                                         GCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGT                                                    >  SRR4302533.1449858/1‑94 (MQ=60)
                                          CTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTA                                                   >  SRR4302533.4710771/1‑94 (MQ=60)
                                           TGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAA                                                  <  SRR4302533.719867/94‑1 (MQ=60)
                                           TGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGACGGACGACGGCGCATGGATACATTTGGGGTAA                                                  >  SRR4302533.2239250/1‑94 (MQ=60)
                                             TTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATT                                                <  SRR4302533.3119092/94‑1 (MQ=60)
                                             TTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATT                                                <  SRR4302533.2555559/94‑1 (MQ=60)
                                              TACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTA                                               <  SRR4302533.712110/94‑1 (MQ=60)
                                              TACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTA                                               >  SRR4302533.1070442/1‑94 (MQ=60)
                                               ACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTAT                                              <  SRR4302533.5282821/94‑1 (MQ=60)
                                               ACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGAGCATGGATACATTTGGCGTAATTAT                                              >  SRR4302533.4036698/1‑94 (MQ=60)
                                                 ACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTA                                            <  SRR4302533.1540178/94‑1 (MQ=60)
                                                  CATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTAT                                           <  SRR4302533.4259658/94‑1 (MQ=60)
                                                  CATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTAT                                           >  SRR4302533.3682750/1‑94 (MQ=60)
                                                  CATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTAT                                           >  SRR4302533.3682749/1‑94 (MQ=60)
                                                   ATTTTGTATTTGGTTGGCATTACTGCCGACGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATT                                          <  SRR4302533.3465051/94‑1 (MQ=60)
                                                   ATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATT                                          <  SRR4302533.5929214/94‑1 (MQ=60)
                                                   ATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATT                                          <  SRR4302533.2603620/94‑1 (MQ=60)
                                                    TTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGCAATTATTATTG                                         >  SRR4302533.3619197/1‑94 (MQ=60)
                                                     TTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGC                                        >  SRR4302533.976837/1‑94 (MQ=60)
                                                     TTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGC                                        <  SRR4302533.2295994/94‑1 (MQ=60)
                                                     TTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGC                                        >  SRR4302533.2678746/1‑94 (MQ=60)
                                                     TTTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGC                                        >  SRR4302533.1446440/1‑94 (MQ=60)
                                                      TTGTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCG                                       <  SRR4302533.760842/94‑1 (MQ=60)
                                                        GTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGAC                                     >  SRR4302533.4940218/1‑94 (MQ=60)
                                                        GTATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGAC                                     <  SRR4302533.1118380/94‑1 (MQ=60)
                                                         TATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACC                                    >  SRR4302533.4941442/1‑94 (MQ=60)
                                                         TATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACC                                    <  SRR4302533.4336765/94‑1 (MQ=60)
                                                         TATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACC                                    >  SRR4302533.3970807/1‑94 (MQ=60)
                                                         TATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACC                                    <  SRR4302533.3831811/94‑1 (MQ=60)
                                                          ATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCG                                   >  SRR4302533.5662020/1‑94 (MQ=60)
                                                          ATTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGAGCATGGGTACATTTGGCGTCATTATTATTGCGACCG                                   >  SRR4302533.3072836/1‑94 (MQ=60)
                                                           TTTGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGC                                  >  SRR4302533.4241757/1‑94 (MQ=60)
                                                             TGGTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACCGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCA                                >  SRR4302533.2516995/1‑94 (MQ=60)
                                                               GTTGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACC                              <  SRR4302533.1139680/94‑1 (MQ=60)
                                                                 TGGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGC                            >  SRR4302533.2694275/1‑94 (MQ=60)
                                                                  GGCATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCA                           <  SRR4302533.5047689/94‑1 (MQ=60)
                                                                     ATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCTACCGCCACCGCAATT                        >  SRR4302533.4869729/1‑94 (MQ=60)
                                                                     ATTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATT                        >  SRR4302533.4869728/1‑94 (MQ=60)
                                                                      TTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTG                       >  SRR4302533.2701424/1‑94 (MQ=60)
                                                                      TTACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTG                       >  SRR4302533.1968452/1‑94 (MQ=60)
                                                                       TACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGG                      <  SRR4302533.2811669/94‑1 (MQ=60)
                                                                       TACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGG                      <  SRR4302533.205429/94‑1 (MQ=60)
                                                                        ACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGC                     >  SRR4302533.6261517/1‑94 (MQ=60)
                                                                        ACTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGC                     <  SRR4302533.273109/94‑1 (MQ=60)
                                                                         ctgccacagccatgccgGGGGGCGCTGGCAGCAGGCCGACGGCGCATGGATACATTTGGCGTTTTTTTAAATGCGACCGCCACCGCAATTGACG                    <  SRR4302533.6338569/77‑1 (MQ=27)
                                                                         CTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCG                    >  SRR4302533.3803592/1‑94 (MQ=60)
                                                                         CTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCG                    <  SRR4302533.2278912/94‑1 (MQ=60)
                                                                         CTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCG                    >  SRR4302533.3856990/1‑94 (MQ=60)
                                                                         CTGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCG                    >  SRR4302533.3051326/1‑94 (MQ=60)
                                                                          TGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGG                   >  SRR4302533.693200/1‑94 (MQ=60)
                                                                          TGCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGG                   >  SRR4302533.1844561/1‑94 (MQ=60)
                                                                           GCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGA                  <  SRR4302533.1012495/94‑1 (MQ=60)
                                                                           GCCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGA                  >  SRR4302533.5021345/1‑94 (MQ=60)
                                                                            CCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAG                 >  SRR4302533.923206/1‑94 (MQ=60)
                                                                            CCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAG                 <  SRR4302533.3855077/94‑1 (MQ=60)
                                                                            CCGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAG                 <  SRR4302533.6247353/94‑1 (MQ=60)
                                                                             CGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGG                <  SRR4302533.2139846/94‑1 (MQ=60)
                                                                             CGAAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGG                <  SRR4302533.828095/94‑1 (MQ=60)
                                                                               AAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGT              <  SRR4302533.2816039/94‑1 (MQ=60)
                                                                               AAGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGG              >  SRR4302533.5401197/1‑94 (MQ=60)
                                                                                AGCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTC             >  SRR4302533.206569/1‑94 (MQ=60)
                                                                                 GCCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCA            >  SRR4302533.3798281/1‑94 (MQ=60)
                                                                                  CCATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGGGGGGCAG           >  SRR4302533.4383089/1‑94 (MQ=60)
                                                                                   CATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGT          >  SRR4302533.2595917/1‑94 (MQ=60)
                                                                                   CATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGT          <  SRR4302533.2002022/94‑1 (MQ=60)
                                                                                   CATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGT          <  SRR4302533.934579/94‑1 (MQ=60)
                                                                                    ATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTG         >  SRR4302533.1950024/1‑94 (MQ=60)
                                                                                    ATGACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTG         <  SRR4302533.4005198/94‑1 (MQ=60)
                                                                                      GACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGGTACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCG       >  SRR4302533.5434216/1‑94 (MQ=60)
                                                                                      GACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCG       <  SRR4302533.3441936/94‑1 (MQ=60)
                                                                                      GACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCG       <  SRR4302533.5877190/94‑1 (MQ=60)
                                                                                      GACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCG       <  SRR4302533.5575903/94‑1 (MQ=60)
                                                                                      GACGGGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCG       >  SRR4302533.5575874/1‑94 (MQ=60)
                                                                                        G‑GGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCGCGA    >  SRR4302533.2296275/1‑94 (MQ=60)
                                                                                           GGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCGCGATA  >  SRR4302533.754439/1‑94 (MQ=60)
                                                                                              |                                                                                          
AATCGCTACCCTGCCAGACAGATTTTTAGGGAGAGAACCATGCTGTTACACATTTTGTATTTGGTTGGCATTACTGCCGAAGCCATGAC‑GGGGGCGCTGGCGGCCGGACGACGGCGCATGGATACATTTGGCGTAATTATTATTGCGACCGCCACCGCAATTGGCGGAGGGTCAGTGCGCGATA  >  NC_000913/3816462‑3816645

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑