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 884 257.2 12958910 96.9% 12557183 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,007,907 +GG intergenic (+109/‑11) pldB → / → b4555 lysophospholipase L(2)/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,007,9071.G95.5% 748.4 / 24.6 221intergenic (+109/‑11)pldB/b4555lysophospholipase L(2)/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (2/8);  new base G (119/92);  total (121/100)
Fisher's exact test for biased strand distribution p-value = 4.58e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
*NC_0009134,007,9072.G95.5% 736.8 / 24.6 221intergenic (+109/‑11)pldB/b4555lysophospholipase L(2)/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (2/8);  new base G (119/91);  total (121/100)
Fisher's exact test for biased strand distribution p-value = 4.56e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

Only 100 of 240 total aligned reads displayed.

TTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGC‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCT  >  NC_000913/4007816‑4007996
                                                                                              ||                                                                                         
ttgttgCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑Cgcgcgcg                                                                                            >  1:2043052/1‑92 (MQ=255)
 tgttgCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑Cgcgcgcgg                                                                                           <  1:4800871/93‑3 (MQ=255)
   ttgCGTCTGATTTAGATGGCACGTTACTTTCTCACGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGACGCTGCTCAC‑‑Cgcgcgcggca                                                                                         >  2:4271575/1‑89 (MQ=255)
         cTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACt                                                                                   <  2:3694756/93‑1 (MQ=255)
          tGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACtt                                                                                  >  1:832448/1‑93 (MQ=255)
           gATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACttt                                                                                 >  2:3930149/1‑93 (MQ=255)
           gATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACttt                                                                                 >  1:1728535/1‑93 (MQ=255)
            aTTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTtg                                                                                >  2:561989/1‑93 (MQ=255)
            aTTTAGATGGAACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTtg                                                                                >  1:378260/1‑93 (MQ=255)
               tAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTgtgt                                                                             <  1:6194195/93‑1 (MQ=255)
                aGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGtt                                                                            <  2:2422267/93‑1 (MQ=255)
                aGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGtt                                                                            >  1:5155241/1‑93 (MQ=255)
                 gATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGttt                                                                           <  1:3037978/93‑1 (MQ=255)
                       aCGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGAcc                                                                     >  1:1294843/1‑93 (MQ=255)
                        cGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCg                                                                    >  2:4050328/1‑93 (MQ=255)
                          ttACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGgt                                                                  <  1:3888495/93‑1 (MQ=255)
                          ttACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGgt                                                                  >  1:5436947/1‑93 (MQ=255)
                           tACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGgtc                                                                 <  1:6011143/93‑1 (MQ=255)
                             cTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGgtcgt                                                               >  2:5183746/1‑93 (MQ=255)
                              tttCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGCCCGgtcgtc                                                              <  1:1048677/93‑1 (MQ=255)
                              tttCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGgtcgtc                                                              >  1:2787534/1‑93 (MQ=255)
                                tctcCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTcac                                                            >  2:1808371/1‑93 (MQ=255)
                                tctcCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTcac                                                            >  2:1275297/1‑93 (MQ=255)
                                  tcCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTcacca                                                          >  1:3550431/1‑93 (MQ=255)
                                  tcCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTcacca                                                          >  2:2677904/1‑93 (MQ=255)
                                     cGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGt                                                       >  1:3688041/1‑93 (MQ=255)
                                     cGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGt                                                       <  1:6355030/93‑1 (MQ=255)
                                     cGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGt                                                       >  2:2978366/1‑93 (MQ=255)
                                     cGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGt                                                       >  1:1244453/1‑93 (MQ=255)
                                       aCCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTg                                                     >  1:1373711/1‑93 (MQ=255)
                                        ccATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGa                                                    >  2:2765688/1‑93 (MQ=255)
                                        ccATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGa                                                    >  2:5432752/1‑93 (MQ=255)
                                        ccATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGa                                                    <  2:5994160/93‑1 (MQ=255)
                                         cATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAt                                                   >  2:617286/1‑93 (MQ=255)
                                          aTACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtg                                                  <  2:1157364/93‑1 (MQ=255)
                                           tACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgt                                                 <  1:5018815/93‑1 (MQ=255)
                                            aCGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgtg                                                >  1:5110851/1‑93 (MQ=255)
                                            aCGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgtg                                                >  1:5961240/1‑93 (MQ=255)
                                            aCGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgtg                                                <  1:161371/93‑1 (MQ=255)
                                            aCGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgtg                                                <  1:1984468/93‑1 (MQ=255)
                                            aCGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgtg                                                >  1:2433255/1‑93 (MQ=255)
                                            aCGTTATCCCCTCACGCCAAAGAAACTCTGAAGCTGCTCACCGCGCGCGC‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAtgtg                                                <  1:6256336/93‑1 (MQ=255)
                                             cGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTgg                                               <  2:1575614/93‑1 (MQ=255)
                                               ttATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTgggg                                             <  2:1412244/93‑1 (MQ=255)
                                               ttATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTgggg                                             >  2:3996618/1‑93 (MQ=255)
                                                tATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGc                                            >  2:2787339/1‑93 (MQ=255)
                                                    cccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAt                                        <  2:747408/93‑1 (MQ=255)
                                                    cccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAt                                        <  1:1841412/93‑1 (MQ=255)
                                                     ccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAtt                                       >  2:4987556/1‑93 (MQ=255)
                                                     ccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAtt                                       <  2:5788159/93‑1 (MQ=255)
                                                     ccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAtt                                       >  2:3596404/1‑93 (MQ=255)
                                                     ccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAtt                                       >  2:200286/1‑93 (MQ=255)
                                                     ccTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAAtt                                       >  2:2474423/1‑93 (MQ=255)
                                                      cTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTc                                      <  1:6064629/93‑1 (MQ=255)
                                                      cTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTc                                      >  2:6263026/1‑93 (MQ=255)
                                                        tACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTcgc                                    >  1:4673248/1‑93 (MQ=255)
                                                           gCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGAt                                 <  2:2855966/93‑1 (MQ=255)
                                                            ccAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATa                                <  2:586322/93‑1 (MQ=255)
                                                             cAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATaa                               >  1:5751712/1‑93 (MQ=255)
                                                             cAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATaa                               >  2:5840912/1‑93 (MQ=255)
                                                              aaaGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAAt                              <  1:1430837/93‑1 (MQ=255)
                                                              aaaGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAAt                              <  2:4747639/93‑1 (MQ=255)
                                                              aaaGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAAt                              >  2:2728014/1‑93 (MQ=255)
                                                                aGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCt                            <  1:1066774/93‑1 (MQ=255)
                                                                aGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCt                            >  2:1763003/1‑93 (MQ=255)
                                                                aGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCt                            <  2:4315241/93‑1 (MQ=255)
                                                                 gAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTg                           <  1:3955001/93‑1 (MQ=255)
                                                                 gAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTg                           <  2:4145497/93‑1 (MQ=255)
                                                                 gAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTg                           <  2:6431885/93‑1 (MQ=255)
                                                                  aaaCTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTgg                          >  1:2382312/1‑93 (MQ=255)
                                                                     ctctGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGgaga                       >  1:4624236/1‑93 (MQ=255)
                                                                      tctGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGAt                      <  2:4578602/93‑1 (MQ=255)
                                                                      tctGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGAt                      <  2:1680775/93‑1 (MQ=255)
                                                                      tctGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGAt                      <  2:1085700/93‑1 (MQ=255)
                                                                         gAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTaa                   <  2:2406125/93‑1 (MQ=255)
                                                                         gAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTaa                   <  1:1020112/93‑1 (MQ=255)
                                                                         gAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTaa                   >  2:3162681/1‑93 (MQ=255)
                                                                         gAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGGTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTaa                   >  1:922495/1‑93 (MQ=255)
                                                                          aaGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAg                  >  1:673017/1‑93 (MQ=255)
                                                                           aGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGt                 <  1:2959003/93‑1 (MQ=255)
                                                                           aGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGt                 <  2:5072879/93‑1 (MQ=255)
                                                                           aGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGt                 <  1:525751/93‑1 (MQ=255)
                                                                           aGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGt                 <  2:4445098/93‑1 (MQ=255)
                                                                            gctgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTc                <  2:3799527/93‑1 (MQ=255)
                                                                            gctgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTc                >  2:4899843/1‑93 (MQ=255)
                                                                            gctgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTc                <  1:2716537/93‑1 (MQ=255)
                                                                            gctgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTc                >  2:3481836/1‑93 (MQ=255)
                                                                            gctgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTc                <  1:4920603/93‑1 (MQ=255)
                                                                             ctgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCt               <  1:3470961/93‑1 (MQ=255)
                                                                              tgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCtt              <  1:2925038/93‑1 (MQ=255)
                                                                              tgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCtt              <  2:1060698/93‑1 (MQ=255)
                                                                              tgctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCtt              >  2:672378/1‑93 (MQ=255)
                                                                               gctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTa             >  1:3263014/1‑93 (MQ=255)
                                                                               gctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTa             >  1:4532839/1‑93 (MQ=255)
                                                                               gctCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTa             <  1:561989/93‑1 (MQ=255)
                                                                                     cgcgcgcgG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGAt       <  2:4617099/91‑1 (MQ=255)
                                                                                     cgcgcgcgG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGAt       <  1:4111864/91‑1 (MQ=255)
                                                                                      gcgcgcgG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGAtt      <  1:6391030/92‑1 (MQ=255)
                                                                                         cgcgg‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTAcc   <  1:1455456/93‑1 (MQ=255)
                                                                                          gcgg‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCt  <  2:5990236/93‑1 (MQ=255)
                                                                                              ||                                                                                         
TTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGC‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCT  >  NC_000913/4007816‑4007996

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ 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
GTTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGC‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCTCCA  >  NC_000913/4007815‑4007999
                                                                                              |                                                                                               
GTTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGC‑‑G                                                                                              >  SRR4302534.1190525/1‑94 (MQ=60)
GTTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGC‑‑G                                                                                              >  SRR4302534.2096458/1‑94 (MQ=60)
 GTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCgg                                                                                               <  SRR4302534.4880840/94‑3 (MQ=60)
  TGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCggc                                                                                              <  SRR4302534.4931233/94‑4 (MQ=60)
  TGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCggc                                                                                              <  SRR4302534.933138/94‑4 (MQ=60)
    TTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCggcat                                                                                            >  SRR4302534.5556118/1‑89 (MQ=60)
     TGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATC                                                                                           <  SRR4302534.2013897/94‑1 (MQ=60)
      GCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCA                                                                                          >  SRR4302534.2221428/1‑94 (MQ=60)
       CGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAA                                                                                         >  SRR4302534.450489/1‑94 (MQ=60)
       CGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAA                                                                                         >  SRR4302534.4088950/1‑94 (MQ=60)
        GTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAAC                                                                                        >  SRR4302534.6165016/1‑94 (MQ=60)
         TCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACT                                                                                       >  SRR4302534.5957700/1‑94 (MQ=60)
         TCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACT                                                                                       <  SRR4302534.2894540/94‑1 (MQ=60)
          CTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTT                                                                                      <  SRR4302534.3598873/94‑1 (MQ=60)
          CTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTT                                                                                      >  SRR4302534.853381/1‑94 (MQ=60)
          CTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAACTGCTCAC‑‑CGCGCGCGGCATCAACTT                                                                                      >  SRR4302534.124943/1‑94 (MQ=60)
           TGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTT                                                                                     <  SRR4302534.2044115/94‑1 (MQ=60)
           TGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTT                                                                                     >  SRR4302534.1773418/1‑94 (MQ=60)
            GATTTAGATGGAACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTG                                                                                    >  SRR4302534.387930/1‑94 (MQ=60)
             ATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGT                                                                                   >  SRR4302534.2820022/1‑94 (MQ=60)
                TAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTT                                                                                <  SRR4302534.6362737/94‑1 (MQ=60)
                TAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTT                                                                                >  SRR4302534.5294272/1‑94 (MQ=60)
                  GATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTG                                                                              <  SRR4302534.4003707/94‑1 (MQ=60)
                  GATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTG                                                                              <  SRR4302534.3117636/94‑1 (MQ=60)
                  GATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTG                                                                              <  SRR4302534.308976/94‑1 (MQ=60)
                  GATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTG                                                                              <  SRR4302534.6510603/94‑1 (MQ=60)
                    TGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCG                                                                            >  SRR4302534.3928127/1‑94 (MQ=60)
                       CACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACC                                                                         <  SRR4302534.5626486/94‑1 (MQ=60)
                       CACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACC                                                                         >  SRR4302534.1328938/1‑94 (MQ=60)
                       CACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACC                                                                         >  SRR4302534.3001988/1‑94 (MQ=60)
                        ACGTTACTTTCTCCCGCCCATACGTTATCCCCTTACGCCAAAGAACCTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCG                                                                        <  SRR4302534.179637/94‑1 (MQ=60)
                        ACGTTACTTTCCCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAG‑‑CGCGCGCGTCATCCACTTTGTGTTTGTGACCG                                                                        >  SRR4302534.4463349/1‑94 (MQ=60)
                         CGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGG                                                                       >  SRR4302534.3650108/1‑94 (MQ=60)
                          GTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGT                                                                      >  SRR4302534.5583372/1‑94 (MQ=60)
                          GTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGT                                                                      >  SRR4302534.1369916/1‑94 (MQ=60)
                           TTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTC                                                                     >  SRR4302534.2499744/1‑94 (MQ=60)
                           TTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTC                                                                     <  SRR4302534.3992885/94‑1 (MQ=60)
                           TTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTC                                                                     <  SRR4302534.158064/94‑1 (MQ=60)
                            TACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCG                                                                    >  SRR4302534.4767976/1‑94 (MQ=60)
                            TACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCA                                                                    <  SRR4302534.6174469/94‑1 (MQ=60)
                              CTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTC                                                                  >  SRR4302534.2860850/1‑94 (MQ=60)
                               TTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGCCCGGTCGTCA                                                                 <  SRR4302534.1075814/94‑1 (MQ=60)
                                 TCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTATTTGCGACCGGTCGTCACC                                                               <  SRR4302534.6342416/94‑1 (MQ=60)
                                  CTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTTTTTGCGACCGGTCGTCACCA                                                              <  SRR4302534.6492018/94‑1 (MQ=60)
                                  CTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCA                                                              >  SRR4302534.1055446/1‑94 (MQ=60)
                                  CTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCA                                                              >  SRR4302534.3378803/1‑94 (MQ=60)
                                  CTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCA                                                              >  SRR4302534.3645903/1‑94 (MQ=60)
                                   TCCCGACCATACGTTATCCCCTTACGCCAGAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCGTCCACTTTGGGTTTGCGAGCGGTCGTCACCAC                                                             >  SRR4302534.6155224/1‑94 (MQ=60)
                                   TCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCGTCAACTTTGTGTTTGCGACCGGTCGTCACCAC                                                             >  SRR4302534.1908382/1‑94 (MQ=60)
                                   TCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCAC                                                             >  SRR4302534.665240/1‑94 (MQ=60)
                                   TCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCAC                                                             <  SRR4302534.5276787/94‑1 (MQ=60)
                                   TCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGGTTGCGACCGGTCGTCACCAC                                                             >  SRR4302534.5066464/1‑94 (MQ=60)
                                     CCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGT                                                           >  SRR4302534.3787200/1‑94 (MQ=60)
                                     CCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGT                                                           >  SRR4302534.1277251/1‑94 (MQ=60)
                                     CCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGT                                                           >  SRR4302534.4770412/1‑94 (MQ=60)
                                      CGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTT                                                          <  SRR4302534.6526655/94‑1 (MQ=60)
                                       GACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTG                                                         >  SRR4302534.1409905/1‑94 (MQ=60)
                                       GACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTG                                                         >  SRR4302534.1433597/1‑94 (MQ=60)
                                        ACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGT                                                        >  SRR4302534.1083424/1‑94 (MQ=60)
                                        ACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGA                                                        >  SRR4302534.5353410/1‑94 (MQ=60)
                                         CCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGCT                                                       >  SRR4302534.2148705/1‑94 (MQ=60)
                                         CCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT                                                       >  SRR4302534.3008702/1‑94 (MQ=60)
                                           ATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GT                                                    <  SRR4302534.4496337/94‑1 (MQ=60)
                                            TACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTG                                                   >  SRR4302534.6123087/1‑94 (MQ=60)
                                            TACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTG                                                   <  SRR4302534.5154416/94‑1 (MQ=60)
                                            TACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTG                                                   >  SRR4302534.2497939/1‑94 (MQ=60)
                                            TACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTG                                                   >  SRR4302534.5248774/1‑94 (MQ=60)
                                             ACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGG                                                  <  SRR4302534.165596/94‑1 (MQ=60)
                                             ACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGG                                                  <  SRR4302534.2036429/94‑1 (MQ=60)
                                             ACGTTATCCCCTCACGCCAAAGAAACTCTGAAGCTGCTCACCGCGCGCGC‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGG                                                  <  SRR4302534.6425886/94‑1 (MQ=60)
                                                TTATCCCCTTCCGCCAAAGAAACTCTGAAGGTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGATGGTGGGG                                                >  SRR4302534.4676404/1‑94 (MQ=60)
                                                TTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGC                                               >  SRR4302534.6130052/1‑94 (MQ=60)
                                                 TATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGGA                                              >  SRR4302534.2293702/1‑94 (MQ=60)
                                                 TATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCA                                              >  SRR4302534.1295931/1‑94 (MQ=60)
                                                     CCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATT                                          <  SRR4302534.1889272/94‑1 (MQ=60)
                                                      TCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTC                                         >  SRR4302534.6422214/1‑94 (MQ=60)
                                                      CCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTC                                         >  SRR4302534.5268464/1‑94 (MQ=60)
                                                      CCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTC                                         >  SRR4302534.5138434/1‑94 (MQ=60)
                                                       CTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCG                                        <  SRR4302534.6229521/94‑1 (MQ=60)
                                                        TTACGCCAAAGAACCTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGC                                       <  SRR4302534.6419932/94‑1 (MQ=60)
                                                        TTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGC                                       >  SRR4302534.4800099/1‑94 (MQ=60)
                                                             CCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAA                                  >  SRR4302534.5158735/1‑94 (MQ=60)
                                                             CCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAA                                  >  SRR4302534.1707366/1‑94 (MQ=60)
                                                             CCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAA                                  >  SRR4302534.5907677/1‑94 (MQ=60)
                                                               AAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTTAGTCAAATTCGCGATAATC                                >  SRR4302534.3991888/1‑94 (MQ=60)
                                                               AAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATC                                <  SRR4302534.1468494/94‑1 (MQ=60)
                                                                AAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCT                               >  SRR4302534.6274958/1‑94 (MQ=60)
                                                                 AGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTG                              <  SRR4302534.1094426/94‑1 (MQ=60)
                                                                 AGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTG                              >  SRR4302534.559653/1‑94 (MQ=60)
                                                                 AGAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTG                              >  SRR4302534.5498451/1‑94 (MQ=60)
                                                                  GAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGG                             <  SRR4302534.4060887/94‑1 (MQ=60)
                                                                  GAAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGG                             >  SRR4302534.2445616/1‑94 (MQ=60)
                                                                   AAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGA                            >  SRR4302534.2609965/1‑94 (MQ=60)
                                                                   AAACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGA                            >  SRR4302534.5956757/1‑94 (MQ=60)
                                                                     ACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGA                          <  SRR4302534.6184714/94‑1 (MQ=60)
                                                                     ACTCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGA                          >  SRR4302534.4749702/1‑94 (MQ=60)
                                                                       TCTGAAGCTGCTCGC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATT                        <  SRR4302534.1487901/94‑1 (MQ=60)
                                                                       TCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATT                        <  SRR4302534.1609392/94‑1 (MQ=60)
                                                                       TCTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATT                        >  SRR4302534.5836533/1‑94 (MQ=60)
                                                                        CTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTA                       >  SRR4302534.82883/1‑94 (MQ=60)
                                                                        CTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTA                       >  SRR4302534.3752938/1‑94 (MQ=60)
                                                                        CTGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTA                       <  SRR4302534.294491/94‑1 (MQ=60)
                                                                         TGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAA                      >  SRR4302534.3187386/1‑94 (MQ=60)
                                                                         TGAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGGTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAA                      >  SRR4302534.945991/1‑94 (MQ=60)
                                                                          GAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAG                     >  SRR4302534.689428/1‑94 (MQ=60)
                                                                          GAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAG                     <  SRR4302534.1046372/94‑1 (MQ=60)
                                                                          GAAGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAG                     >  SRR4302534.2485782/1‑94 (MQ=60)
                                                                            AGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTC                   <  SRR4302534.3036542/94‑1 (MQ=60)
                                                                            AGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTC                   >  SRR4302534.1385015/1‑94 (MQ=60)
                                                                            AGCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTC                   <  SRR4302534.538812/94‑1 (MQ=60)
                                                                             GCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCT                  <  SRR4302534.2788237/94‑1 (MQ=60)
                                                                             GCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCT                  <  SRR4302534.5053968/94‑1 (MQ=60)
                                                                             GCTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGACATTAAGTCT                  <  SRR4302534.6534206/94‑1 (MQ=60)
                                                                              CTGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTT                 <  SRR4302534.3564248/94‑1 (MQ=60)
                                                                               TGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTA                >  SRR4302534.4655675/1‑94 (MQ=60)
                                                                               TGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTA                <  SRR4302534.3001817/94‑1 (MQ=60)
                                                                               TGCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTA                >  SRR4302534.3349906/1‑94 (MQ=60)
                                                                                GCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATgagttcttca               >  SRR4302534.1859457/1‑84 (MQ=60)
                                                                                GCTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTAC               <  SRR4302534.575818/94‑1 (MQ=60)
                                                                                 CTCAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACA              >  SRR4302534.2647973/1‑94 (MQ=60)
                                                                                   CAC‑‑CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATG            >  SRR4302534.706378/1‑94 (MQ=60)
                                                                                     G‑‑CGCGCGG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTA        <  SRR4302534.6563652/94‑1 (MQ=60)
                                                                                     G‑‑CGCGCGG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTA        <  SRR4302534.4947347/94‑1 (MQ=60)
                                                                                        CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATT         <  SRR4302534.4222479/94‑1 (MQ=60)
                                                                                        CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATT         <  SRR4302534.1819082/94‑1 (MQ=60)
                                                                                        CGCGCGCGGCATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATT         <  SRR4302534.3235482/94‑1 (MQ=60)
                                                                                          CGCGG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCT     <  SRR4302534.1493741/94‑1 (MQ=60)
                                                                                          CGCGG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCT     <  SRR4302534.4062075/94‑1 (MQ=60)
                                                                                           GCGG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCTC    <  SRR4302534.3799150/94‑1 (MQ=60)
                                                                                            CGG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCTCC   >  SRR4302534.3969425/1‑94 (MQ=60)
                                                                                             GG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGTGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACAAGATTACCTCCA  >  SRR4302534.6261095/1‑94 (MQ=60)
                                                                                             GG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCTCCA  >  SRR4302534.4495030/1‑94 (MQ=60)
                                                                                             GG‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCTCCA  >  SRR4302534.2065017/1‑94 (MQ=60)
                                                                                              |                                                                                               
GTTGTTGCGTCTGATTTAGATGGCACGTTACTTTCTCCCGACCATACGTTATCCCCTTACGCCAAAGAAACTCTGAAGCTGCTCAC‑‑CGCGCGC‑‑CATCAACTTTGTGTTTGCGACCGGTCGTCACCACGTTGAT‑GTGGGGCAAATTCGCGATAATCTGGAGATTAAGTCTTACATGATTACCTCCA  >  NC_000913/4007815‑4007999

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: ‑