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 1873 183.1 9376148 98.2% 9207377 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,115,116 +C coding (2013/2028 nt) b2974 ← putative endoglucanase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,115,1151.C100.0% 688.4 / NA 213K672E (AAA→GAA) b2974putative endoglucanase
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (101/112);  total (101/112)

Only 100 of 229 total aligned reads displayed.

GTTTGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTT‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCC  >  NC_000913/3115023‑3115202
                                                                                              |                                                                                       
gTTTGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑ttt                                                                                          >  2:2606746/1‑93 (MQ=255)
 tttGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTT‑c                                                                                        >  2:523111/1‑93 (MQ=255)
 tttGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTT‑c                                                                                        <  2:448096/93‑1 (MQ=255)
    gCTGGTATCTGCCCGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTT‑cctg                                                                                     <  2:3209353/93‑4 (MQ=255)
    gCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGGA‑TTT‑cctg                                                                                     >  1:4506289/1‑90 (MQ=255)
     cTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTT‑cctgc                                                                                    <  2:622146/93‑5 (MQ=255)
       ggTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCgg                                                                                   >  2:2626189/1‑93 (MQ=255)
       ggTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCgg                                                                                   >  2:3401875/1‑93 (MQ=255)
        gTATCTGCACGCAGCTGGATTCCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGa                                                                                  <  2:3439191/93‑1 (MQ=255)
        gTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGa                                                                                  >  1:1820748/1‑93 (MQ=255)
         tATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGAt                                                                                 >  2:378841/1‑93 (MQ=255)
          aTCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATc                                                                                >  2:4173936/1‑93 (MQ=255)
           tCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCg                                                                               >  1:3839607/1‑93 (MQ=255)
            cTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCga                                                                              <  1:2241430/93‑1 (MQ=255)
            cTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCga                                                                              >  1:1247505/1‑93 (MQ=255)
             tGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCgag                                                                             <  1:1000649/93‑1 (MQ=255)
             tGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCgag                                                                             >  1:3229449/1‑93 (MQ=255)
              gCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCgaga                                                                            >  2:383087/1‑93 (MQ=255)
              gCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCgaga                                                                            <  2:2261304/93‑1 (MQ=255)
               cACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGAt                                                                           >  2:3677272/1‑93 (MQ=255)
               cACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGAt                                                                           >  2:375349/1‑93 (MQ=255)
               cACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGAt                                                                           <  1:964798/93‑1 (MQ=255)
                aCGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATc                                                                          <  2:4641479/93‑1 (MQ=255)
                  gCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGc                                                                        <  1:1088730/93‑1 (MQ=255)
                    aGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCa                                                                      <  2:1206636/93‑1 (MQ=255)
                    aGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCa                                                                      <  1:3317944/93‑1 (MQ=255)
                     gCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCAt                                                                     <  1:3639372/93‑1 (MQ=255)
                      cGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATa                                                                    <  1:3499544/93‑1 (MQ=255)
                      cGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATa                                                                    <  1:62074/93‑1 (MQ=255)
                       gggATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAg                                                                   <  2:2300110/93‑1 (MQ=255)
                        ggATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGc                                                                  <  2:2988304/93‑1 (MQ=255)
                        ggATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGc                                                                  >  2:108932/1‑93 (MQ=255)
                         gATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCt                                                                 >  2:908990/1‑93 (MQ=255)
                         gATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCt                                                                 <  2:1482345/93‑1 (MQ=255)
                           ttGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTAc                                                               <  2:2815194/93‑1 (MQ=255)
                           ttGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTAc                                                               <  2:3542056/93‑1 (MQ=255)
                             gCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACtt                                                             >  2:1610071/1‑93 (MQ=255)
                             gCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACtt                                                             >  2:3700431/1‑93 (MQ=255)
                               aTAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTaa                                                           >  1:3808088/1‑93 (MQ=255)
                               aTAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTaa                                                           >  1:1666174/1‑93 (MQ=255)
                                tAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTaaa                                                          <  2:866715/93‑1 (MQ=255)
                                tAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTaaa                                                          <  1:1125727/93‑1 (MQ=255)
                                 aaGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAAt                                                         <  1:3981372/93‑1 (MQ=255)
                                 aaGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAAt                                                         >  1:2626399/1‑93 (MQ=255)
                                 aaGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAAt                                                         <  2:1247675/93‑1 (MQ=255)
                                 aaGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAAt                                                         <  2:3497643/93‑1 (MQ=255)
                                   ggATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGc                                                       <  2:480512/93‑1 (MQ=255)
                                   ggATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGc                                                       <  2:2536369/93‑1 (MQ=255)
                                     aTCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTc                                                     <  2:4011157/93‑1 (MQ=255)
                                      tCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCa                                                    >  1:761327/1‑93 (MQ=255)
                                      tCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCa                                                    <  2:1583989/93‑1 (MQ=255)
                                       cGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCaa                                                   <  2:1295482/93‑1 (MQ=255)
                                       cGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCaa                                                   <  1:1535301/93‑1 (MQ=255)
                                        gTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAAc                                                  <  1:220323/93‑1 (MQ=255)
                                        gTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAAc                                                  <  2:1526830/93‑1 (MQ=255)
                                         ttACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACa                                                 >  1:491129/1‑93 (MQ=255)
                                         ttACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACa                                                 <  1:4150908/93‑1 (MQ=255)
                                          tACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACag                                                <  2:2033765/93‑1 (MQ=255)
                                            cccACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACagag                                              <  1:4493926/93‑1 (MQ=255)
                                            cccACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACagag                                              >  1:3248879/1‑93 (MQ=255)
                                              cACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGAt                                            >  2:3967896/1‑93 (MQ=255)
                                               aCCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATg                                           >  1:1975469/1‑93 (MQ=255)
                                               aCCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATg                                           <  2:1165893/93‑1 (MQ=255)
                                                ccTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGc                                          <  1:3452386/93‑1 (MQ=255)
                                                  tGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGccc                                        >  2:1228099/1‑93 (MQ=255)
                                                  tGAGCCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGccc                                        <  1:3001603/93‑1 (MQ=255)
                                                   gAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCg                                       >  1:3174233/1‑93 (MQ=255)
                                                        acaTATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCaaaa                                  >  1:2702924/1‑93 (MQ=255)
                                                        acaTATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCaaaa                                  >  2:785884/1‑93 (MQ=255)
                                                         caTATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAAt                                 <  2:604761/93‑1 (MQ=255)
                                                          atatTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATc                                <  2:1877614/93‑1 (MQ=255)
                                                          atatTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATc                                >  2:1707602/1‑93 (MQ=255)
                                                          atatTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATc                                <  1:2518598/93‑1 (MQ=255)
                                                          atatTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATc                                <  2:107580/93‑1 (MQ=255)
                                                           tatTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATcc                               >  2:1334460/1‑93 (MQ=255)
                                                           tatTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATcc                               <  1:2305777/93‑1 (MQ=255)
                                                              tCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGa                            <  1:4617240/93‑1 (MQ=255)
                                                              tCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGa                            >  1:2700161/1‑93 (MQ=255)
                                                               cAAAGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGAt                           <  1:2874090/93‑1 (MQ=255)
                                                                aaaGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATg                          <  2:930125/93‑1 (MQ=255)
                                                                aaaGCCGTGAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATg                          >  2:4581281/1‑93 (MQ=255)
                                                                 aaGCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATgg                         <  1:4366869/93‑1 (MQ=255)
                                                                   gCCGTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGaa                       >  1:116932/1‑93 (MQ=255)
                                                                      gTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTc                    <  1:4309463/93‑1 (MQ=255)
                                                                      gTTAAGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTc                    <  2:4255551/93‑1 (MQ=255)
                                                                         aaGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGaa                 >  1:4061449/1‑93 (MQ=255)
                                                                         aaGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGaa                 <  2:2139229/93‑1 (MQ=255)
                                                                         aaGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGaa                 >  1:1610205/1‑93 (MQ=255)
                                                                          aGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAAc                >  1:4227007/1‑93 (MQ=255)
                                                                          aGGATCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAAc                <  1:2943650/93‑1 (MQ=255)
                                                                             gtCAGCAGCGGGAGTTC‑CTGCGGGTCGAGATCGCCATAGATACTTAAATTCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCa             >  2:4297728/2‑93 (MQ=255)
                                                                              tCAGCAGCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAg            <  2:275101/93‑1 (MQ=255)
                                                                               cagcagCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAgc           <  2:1029316/93‑1 (MQ=255)
                                                                               cagcagCGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAgc           <  2:2884539/93‑1 (MQ=255)
                                                                                    gcGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCa             <  1:137923/86‑1 (MQ=255)
                                                                                    gcGGCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCa             >  2:137923/1‑86 (MQ=255)
                                                                                      ggCA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGttt    >  2:4035194/1‑93 (MQ=255)
                                                                                        cA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTcc  <  1:708155/93‑1 (MQ=255)
                                                                                        cA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTcc  <  1:3162938/93‑1 (MQ=255)
                                                                                        cA‑TTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTcc  <  1:4282009/93‑1 (MQ=255)
                                                                                              |                                                                                       
GTTTGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCA‑TTT‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCC  >  NC_000913/3115023‑3115202

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ 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
TTGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTT‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACC  >  NC_000913/3115025‑3115209
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TTGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTT‑Cct                                                                                             <  SRR4302535.4079003/94‑3 (MQ=60)
 TGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGGATTT‑Cctg                                                                                            >  SRR4302535.4537222/1‑91 (MQ=60)
   CTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCG                                                                                           <  SRR4302535.3267703/94‑1 (MQ=60)
   CTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCG                                                                                           >  SRR4302535.4435476/1‑94 (MQ=60)
    TGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGG                                                                                          >  SRR4302535.3097366/1‑94 (MQ=60)
     GGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGA                                                                                         >  SRR4302535.1833903/1‑94 (MQ=60)
        ATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCG                                                                                      >  SRR4302535.3866070/1‑94 (MQ=60)
         TCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGA                                                                                     >  SRR4302535.1256405/1‑94 (MQ=60)
          CTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAG                                                                                    <  SRR4302535.2257375/94‑1 (MQ=60)
          CTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAG                                                                                    >  SRR4302535.3251834/1‑94 (MQ=60)
           TGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGA                                                                                   <  SRR4302535.1007760/94‑1 (MQ=60)
           TGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGA                                                                                   <  SRR4302535.4497656/94‑1 (MQ=60)
            GCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGAT                                                                                  >  SRR4302535.855878/1‑94 (MQ=60)
             CACGCAGCGGTATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATC                                                                                 <  SRR4302535.2673907/94‑1 (MQ=60)
             CACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATC                                                                                 <  SRR4302535.971656/94‑1 (MQ=60)
              CCGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCG                                                                                <  SRR4302535.3843502/94‑1 (MQ=60)
                GCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCC                                                                              >  SRR4302535.3192445/1‑94 (MQ=60)
                GCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCC                                                                              <  SRR4302535.1096479/94‑1 (MQ=60)
                  AGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCAT                                                                            >  SRR4302535.3293588/1‑94 (MQ=60)
                  AGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCAT                                                                            <  SRR4302535.3341030/94‑1 (MQ=60)
                   GCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATA                                                                           <  SRR4302535.237433/94‑1 (MQ=60)
                   GCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATA                                                                           <  SRR4302535.3664586/94‑1 (MQ=60)
                    CGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAG                                                                          <  SRR4302535.62538/94‑1 (MQ=60)
                    CGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAG                                                                          <  SRR4302535.1202552/94‑1 (MQ=60)
                    CGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAG                                                                          <  SRR4302535.3523874/94‑1 (MQ=60)
                     GGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGC                                                                         <  SRR4302535.4094869/94‑1 (MQ=60)
                       GATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTA                                                                       >  SRR4302535.3503442/1‑94 (MQ=60)
                        ATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTAC                                                                      >  SRR4302535.1225335/1‑94 (MQ=60)
                          TGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTT                                                                    >  SRR4302535.4705229/1‑94 (MQ=60)
                          TGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTT                                                                    >  SRR4302535.322075/1‑94 (MQ=60)
                           GCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTA                                                                   >  SRR4302535.116198/1‑94 (MQ=60)
                            CATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAA                                                                  >  SRR4302535.1678228/1‑94 (MQ=60)
                            CATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAA                                                                  >  SRR4302535.3834355/1‑94 (MQ=60)
                              TAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTACAT                                                                >  SRR4302535.1519546/1‑94 (MQ=60)
                              TAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAAT                                                                >  SRR4302535.2645218/1‑94 (MQ=60)
                              TAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAAT                                                                <  SRR4302535.1133763/94‑1 (MQ=60)
                               AAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATG                                                               >  SRR4302535.313933/1‑94 (MQ=60)
                               AAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATG                                                               <  SRR4302535.1062795/94‑1 (MQ=60)
                               AAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATG                                                               <  SRR4302535.4008571/94‑1 (MQ=60)
                                   ATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCA                                                           >  SRR4302535.766693/1‑94 (MQ=60)
                                    TCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAA                                                          >  SRR4302535.3009098/1‑94 (MQ=60)
                                     CGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAAC                                                         >  SRR4302535.154609/1‑94 (MQ=60)
                                     CGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAAC                                                         <  SRR4302535.1546362/94‑1 (MQ=60)
                                      GTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACA                                                        <  SRR4302535.221840/94‑1 (MQ=60)
                                      GTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACA                                                        >  SRR4302535.494573/1‑94 (MQ=60)
                                      GTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACA                                                        >  SRR4302535.3371787/1‑94 (MQ=60)
                                       TTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAG                                                       <  SRR4302535.4179332/94‑1 (MQ=60)
                                         ACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAG                                                     >  SRR4302535.3271448/1‑94 (MQ=60)
                                          CCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGA                                                    <  SRR4302535.4524772/94‑1 (MQ=60)
                                          CCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGA                                                    >  SRR4302535.4004914/1‑94 (MQ=60)
                                           CCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGAT                                                   <  SRR4302535.2282447/94‑1 (MQ=60)
                                            CACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATG                                                  >  SRR4302535.1989699/1‑94 (MQ=60)
                                            CACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATG                                                  >  SRR4302535.1284200/1‑94 (MQ=60)
                                             ACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGC                                                 >  SRR4302535.4614019/1‑94 (MQ=60)
                                             ACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGC                                                 <  SRR4302535.2900482/94‑1 (MQ=60)
                                              CCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCC                                                <  SRR4302535.3476383/94‑1 (MQ=60)
                                              CCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCC                                                >  SRR4302535.1105251/1‑94 (MQ=60)
                                               CTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCC                                               <  SRR4302535.4180660/94‑1 (MQ=60)
                                               CTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCC                                               <  SRR4302535.565549/94‑1 (MQ=60)
                                                TGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCG                                              >  SRR4302535.3196201/1‑94 (MQ=60)
                                                TGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCG                                              >  SRR4302535.1682980/1‑94 (MQ=60)
                                                TGAGCCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCG                                              <  SRR4302535.3022643/94‑1 (MQ=60)
                                                     CACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAA                                         >  SRR4302535.4263973/1‑94 (MQ=60)
                                                     CACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAA                                         >  SRR4302535.2722234/1‑94 (MQ=60)
                                                     CACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAA                                         >  SRR4302535.639739/1‑94 (MQ=60)
                                                      ACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAAT                                        <  SRR4302535.3292908/94‑1 (MQ=60)
                                                       CATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATC                                       <  SRR4302535.2255218/94‑1 (MQ=60)
                                                       CATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATC                                       >  SRR4302535.4447459/1‑94 (MQ=60)
                                                        ATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCC                                      <  SRR4302535.2536751/94‑1 (MQ=60)
                                                        ATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCC                                      >  SRR4302535.2593874/1‑94 (MQ=60)
                                                         TATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCG                                     <  SRR4302535.2322270/94‑1 (MQ=60)
                                                         TATTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCG                                     >  SRR4302535.2888091/1‑94 (MQ=60)
                                                           TTCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGA                                   >  SRR4302535.2719455/1‑94 (MQ=60)
                                                            TCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGAT                                  <  SRR4302535.515868/94‑1 (MQ=60)
                                                            TCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGAT                                  <  SRR4302535.1900952/94‑1 (MQ=60)
                                                            TCAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGAT                                  <  SRR4302535.4648616/94‑1 (MQ=60)
                                                             CAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATG                                 <  SRR4302535.3573097/94‑1 (MQ=60)
                                                             CAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATG                                 >  SRR4302535.78382/1‑94 (MQ=60)
                                                             CAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATG                                 <  SRR4302535.2894455/94‑1 (MQ=60)
                                                             CAAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATG                                 >  SRR4302535.1993493/1‑94 (MQ=60)
                                                              AAAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGG                                >  SRR4302535.2217381/1‑94 (MQ=60)
                                                               AAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGA                               >  SRR4302535.2843291/1‑94 (MQ=60)
                                                               AAGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGA                               <  SRR4302535.4396751/94‑1 (MQ=60)
                                                                AGCCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAA                              >  SRR4302535.117755/1‑94 (MQ=60)
                                                                  CCGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGT                            >  SRR4302535.2401822/1‑94 (MQ=60)
                                                                   CGTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTC                           >  SRR4302535.4036755/1‑94 (MQ=60)
                                                                    GTTAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCG                          <  SRR4302535.4338944/94‑1 (MQ=60)
                                                                      TAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAA                        >  SRR4302535.4089249/1‑94 (MQ=60)
                                                                      TAAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAA                        >  SRR4302535.1621811/1‑94 (MQ=60)
                                                                       AAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAAC                       >  SRR4302535.4255933/1‑94 (MQ=60)
                                                                       AAGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAAC                       >  SRR4302535.4311907/1‑94 (MQ=60)
                                                                        AGGATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACG                      <  SRR4302535.2964343/94‑1 (MQ=60)
                                                                           cgtggtAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAG                   <  SRR4302535.138888/88‑1 (MQ=60)
                                                                           ATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAG                   <  SRR4302535.3617181/94‑1 (MQ=60)
                                                                           ATCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAG                   >  SRR4302535.1600881/1‑94 (MQ=60)
                                                                            TCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGC                  >  SRR4302535.4371963/1‑94 (MQ=60)
                                                                            TCAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGC                  <  SRR4302535.3702730/94‑1 (MQ=60)
                                                                             CAGCAGCGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCG                 >  SRR4302535.4533180/1‑94 (MQ=60)
                                                                                   CGGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTT           <  SRR4302535.272049/94‑1 (MQ=60)
                                                                                    GGCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTC          <  SRR4302535.731425/94‑1 (MQ=60)
                                                                                     GCATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCC         <  SRR4302535.4266474/94‑1 (MQ=60)
                                                                                      CATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCT        <  SRR4302535.3184874/94‑1 (MQ=60)
                                                                                      CATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCT        <  SRR4302535.4311306/94‑1 (MQ=60)
                                                                                      CATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCT        <  SRR4302535.1666543/94‑1 (MQ=60)
                                                                                      CATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCT        <  SRR4302535.713124/94‑1 (MQ=60)
                                                                                       ATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTG       <  SRR4302535.1182539/94‑1 (MQ=60)
                                                                                       ATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTG       >  SRR4302535.3499413/1‑94 (MQ=60)
                                                                                       ATTTCCTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTG       >  SRR4302535.886815/1‑94 (MQ=60)
                                                                                        TTC‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTA     <  SRR4302535.4421894/94‑1 (MQ=60)
                                                                                         TC‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAA    >  SRR4302535.2161539/1‑94 (MQ=60)
                                                                                          C‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAAC   >  SRR4302535.1616543/1‑94 (MQ=60)
                                                                                          C‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAAC   <  SRR4302535.3162969/94‑1 (MQ=60)
                                                                                            CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACC  <  SRR4302535.3224499/94‑1 (MQ=60)
                                                                                            CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACC  <  SRR4302535.1837285/94‑1 (MQ=60)
                                                                                            CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACC  >  SRR4302535.1318629/1‑94 (MQ=60)
                                                                                            CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGCTTCCTGTAACC  >  SRR4302535.990437/1‑94 (MQ=60)
                                                                                            |                                                                                             
TTGCTGGTATCTGCACGCAGCGGGATTGCATAAGGATCGTTACCCACCTGAGTCACATATTCAAAGCCGTTAAGGATCAGCAGCGGCATTT‑CTGCGGATCGAGATCGCCATAGCTACTTAAATGCTCAACAGAGATGCCCGCAAAATCCGGATGGAAGTCGAACGCAGCGCTGTTTCCTGTAACC  >  NC_000913/3115025‑3115209

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑