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 I1 R1	1548	369.5	20095359	96.9%	19472402	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,594,520	A→G	S531P (TCC→CCC)	ydeK ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,594,520	0	A	G	99.3%	859.8 / ‑3.2	270	S531P (TCC→CCC)	ydeK	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (1/1); new base G (136/132); total (137/133)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.26e-01

Only 100 of 280 total aligned reads displayed.

ATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGAGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCACCATTACTGACATTTACGATACCGCTACCAAAATTACCGACAT  >  NC_000913/1594430‑1594609

aTACTCCGGCCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑Ggggg                                                                                         <  2:3056908/93‑1 (MQ=255)

 tACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGc                                                                                        <  2:3352684/93‑1 (MQ=255)

  acacCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCa                                                                                       <  1:4278254/93‑1 (MQ=255)

  acacCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCa                                                                                       <  2:7400602/93‑1 (MQ=255)

   cacCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCAt                                                                                      <  1:6041704/93‑1 (MQ=255)

   cacCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCAt                                                                                      >  2:188977/1‑93 (MQ=255)

    acCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCAtt                                                                                     >  2:6522410/1‑93 (MQ=255)

      cGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtc                                                                                   >  1:1547751/1‑93 (MQ=255)

        aCCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtcct                                                                                 >  1:4894416/1‑93 (MQ=255)

        aCCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtcct                                                                                 >  2:7551378/1‑93 (MQ=255)

         ccTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtcctc                                                                                <  1:9179911/93‑1 (MQ=255)

         ccTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtcctc                                                                                >  2:4701246/1‑93 (MQ=255)

         ccTGTAGCAATTGTGCGTTAGTAGATGATGCCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtcctc                                                                                <  2:2040084/93‑1 (MQ=255)

          cTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTtcctcc                                                                               <  1:6480872/93‑1 (MQ=255)

           tGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCg                                                                              >  2:7219091/1‑93 (MQ=255)

            gTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCgt                                                                             >  1:5607745/1‑92 (MQ=255)

             tAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGAt                                                                            <  2:2274609/93‑1 (MQ=255)

              aGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATa                                                                           <  1:7991132/93‑1 (MQ=255)

              aGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATa                                                                           <  2:7735909/93‑1 (MQ=255)

              aGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATa                                                                           <  2:3661/93‑1 (MQ=255)

               gCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATaa                                                                          <  2:10016652/93‑1 (MQ=255)

                cAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCACCTTACC‑GGGGGCATTTCCTCCGATaaa                                                                         >  1:1013959/1‑93 (MQ=255)

                  aTTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATc                                                                       <  2:3461020/93‑1 (MQ=255)

                    tgtgCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCa                                                                     <  1:543823/93‑1 (MQ=255)

                      tgCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATa                                                                   <  2:2541126/93‑1 (MQ=255)

                       gCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAg                                                                  >  2:5188145/1‑93 (MQ=255)

                       gCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAg                                                                  <  1:9863342/93‑1 (MQ=255)

                         gTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGcc                                                                <  1:7491854/93‑1 (MQ=255)

                         gTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCATTACC‑GGGGGCATTTCCTCCGATAAATCCATAGcc                                                                <  1:1842991/93‑1 (MQ=255)

                          ttAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGccc                                                               >  1:6291972/1‑93 (MQ=255)

                          ttAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGccc                                                               <  2:382754/93‑1 (MQ=255)

                           tagtagATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCg                                                              >  2:8917483/1‑93 (MQ=255)

                            agtagATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGt                                                             >  2:7469992/1‑93 (MQ=255)

                               agATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGa                                                          >  2:287706/1‑93 (MQ=255)

                                gatgatGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCGCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGaa                                                         >  2:6808087/1‑93 (MQ=255)

                                gatgatGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGaa                                                         <  1:3725042/93‑1 (MQ=255)

                                 atgatgTCTTTAAATTCCAGAGACCGTCCGTTGAAACATTAACTGTCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAAt                                                        <  1:6065161/93‑1 (MQ=255)

                                  tgatgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAAtt                                                       >  2:5217329/1‑93 (MQ=255)

                                  tgatgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGGTGaagt                                                       >  2:1474084/1‑91 (MQ=255)

                                   gatgTCTTTAAATTCCAGAGACTGTCCGTTGCAATATTAACTCTCCCCTTACC‑GGGGGCATTTCCTCCGGTAAATCCAGAGGCCGTTGCATTa                                                      >  1:8153292/1‑93 (MQ=255)

                                     tgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAg                                                    <  2:6103464/93‑1 (MQ=255)

                                     tgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAg                                                    >  2:560626/1‑93 (MQ=255)

                                     tgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAg                                                    >  1:865629/1‑93 (MQ=255)

                                     tgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAg                                                    >  1:8411718/1‑93 (MQ=255)

                                     tgTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAg                                                    >  1:7021538/1‑93 (MQ=255)

                                      gTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAgg                                                   >  1:3240207/1‑93 (MQ=255)

                                       tCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAggg                                                  <  1:2224815/93‑1 (MQ=255)

                                        cTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGt                                                 <  2:9015162/93‑1 (MQ=255)

                                        cTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGt                                                 <  2:870792/93‑1 (MQ=255)

                                          ttAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTgg                                               >  2:567690/1‑93 (MQ=255)

                                          ttAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTgg                                               <  2:603863/93‑1 (MQ=255)

                                          ttAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTgg                                               >  2:1147407/1‑93 (MQ=255)

                                           tAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGc                                              <  1:9483211/93‑1 (MQ=255)

                                           tAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGc                                              >  1:9635632/1‑93 (MQ=255)

                                           tAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGc                                              >  1:3383364/1‑93 (MQ=255)

                                            aaaTTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGGCCGTTGTATTAAGGGTGGcg                                             >  2:5520491/1‑92 (MQ=255)

                                            aaaTTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGcg                                             <  2:9496293/93‑2 (MQ=255)

                                                 ccAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCAtt                                        <  1:1251708/93‑1 (MQ=255)

                                                   agagACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTAc                                      <  1:7884098/93‑1 (MQ=255)

                                                    gagaCTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACt                                     <  1:7672267/93‑1 (MQ=255)

                                                    gagaCTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACt                                     <  2:6298212/93‑1 (MQ=255)

                                                     agaCTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTg                                    <  2:8903047/93‑1 (MQ=255)

                                                     agaCTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTg                                    <  1:9509830/93‑1 (MQ=255)

                                                        cTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACa                                 <  2:4312796/93‑1 (MQ=255)

                                                        cTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACa                                 >  2:883326/1‑93 (MQ=255)

                                                        cTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACa                                 >  2:978976/1‑93 (MQ=255)

                                                          gTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAtt                               >  2:8247321/1‑93 (MQ=255)

                                                          gTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAtt                               >  2:5006025/1‑93 (MQ=255)

                                                           tCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAttt                              >  1:8968838/1‑93 (MQ=255)

                                                            ccGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTa                             <  2:4658409/93‑1 (MQ=255)

                                                            ccGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTa                             <  2:1242048/93‑1 (MQ=255)

                                                            ccGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTa                             <  1:4035488/93‑1 (MQ=255)

                                                            ccGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTa                             <  1:5262657/93‑1 (MQ=255)

                                                             cGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTAc                            <  2:2195451/93‑1 (MQ=255)

                                                               ttGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGa                          >  1:1747394/1‑93 (MQ=255)

                                                               ttGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGa                          <  1:2601301/93‑1 (MQ=255)

                                                                tGAAATATTAACTATCCCCTTACCGGGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGa                          <  1:5096257/93‑1 (MQ=255)

                                                                tGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGAt                         >  1:9325485/1‑93 (MQ=255)

                                                                 gAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATa                        >  2:2726253/1‑93 (MQ=255)

                                                                 gAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATa                        <  1:3934034/93‑1 (MQ=255)

                                                                  aaaTATTAAC‑ATCCCCTTACC‑CGGGGCATTTTCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATaac                      >  1:2100311/1‑91 (MQ=255)

                                                                     tatTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGc                    <  1:2353961/93‑1 (MQ=255)

                                                                     tatTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGc                    >  2:1580500/1‑93 (MQ=255)

                                                                        tAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTAc                 <  1:1365963/93‑1 (MQ=255)

                                                                        tAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTAc                 <  2:7892056/93‑1 (MQ=255)

                                                                        tAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTAc                 >  1:861086/1‑93 (MQ=255)

                                                                         aaCTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTAcc                <  2:6444014/93‑1 (MQ=255)

                                                                            tATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCaaa             >  1:5476436/1‑93 (MQ=255)

                                                                             aTCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGATATTTACGATACCGCTACCaaaa            >  1:4548248/1‑93 (MQ=255)

                                                                             aTCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCaaaa            <  1:1187646/93‑1 (MQ=255)

                                                                              tCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAAt           <  1:4641995/93‑1 (MQ=255)

                                                                              tCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAAt           <  2:4205782/93‑1 (MQ=255)

                                                                                 ccTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTAc        <  1:8516825/93‑1 (MQ=255)

                                                                                  cTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCCAAATTAcc       >  2:8355775/1‑93 (MQ=255)

                                                                                  cTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTAcc       <  2:7086861/93‑1 (MQ=255)

                                                                                   ttACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCg      >  2:36120/1‑93 (MQ=255)

                                                                                    tccc‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGCGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGa     <  1:3002175/91‑1 (MQ=255)

                                                                                    tACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGa     >  1:6643227/1‑93 (MQ=255)

                                                                                     aCC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGAc    >  2:2258755/1‑93 (MQ=255)

                                                                                      cc‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACa   <  1:5897583/93‑1 (MQ=255)

ATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGAGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCACCATTACTGACATTTACGATACCGCTACCAAAATTACCGACAT  >  NC_000913/1594430‑1594609

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 19 ≤` `ATCG/ATCG` `< 28 ≤` `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

CTAATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGAGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCACCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTGAT  >  NC_000913/1594427‑1594613

CTAATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGG                                                                                               <  SRR4302540.3516943/94‑1 (MQ=60)

CTAATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGG                                                                                               >  SRR4302540.3613356/1‑94 (MQ=60)

  AATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGG                                                                                             >  SRR4302540.8837336/1‑94 (MQ=60)

  AATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGG                                                                                             >  SRR4302540.8231976/1‑94 (MQ=60)

     ACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCAT                                                                                          <  SRR4302540.4324786/94‑1 (MQ=60)

      CACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATT                                                                                         <  SRR4302540.9596541/94‑1 (MQ=60)

      CACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATT                                                                                         <  SRR4302540.6108805/94‑1 (MQ=60)

        CCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTC                                                                                       >  SRR4302540.1564820/1‑94 (MQ=60)

        CCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTC                                                                                       >  SRR4302540.3285431/1‑94 (MQ=60)

         CGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCC                                                                                      <  SRR4302540.6678507/94‑1 (MQ=60)

         CGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCC                                                                                      <  SRR4302540.2375013/94‑1 (MQ=60)

          GACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCT                                                                                     >  SRR4302540.4947050/1‑94 (MQ=60)

          GACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCT                                                                                     >  SRR4302540.873984/1‑94 (MQ=60)

          GACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCT                                                                                     >  SRR4302540.1407383/1‑94 (MQ=60)

          GACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCT                                                                                     >  SRR4302540.1407384/1‑94 (MQ=60)

          GACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCT                                                                                     >  SRR4302540.5881513/1‑94 (MQ=60)

            CCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCC                                                                                   <  SRR4302540.9290014/94‑1 (MQ=60)

             CTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCG                                                                                  <  SRR4302540.6552970/94‑1 (MQ=60)

             CTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCG                                                                                  >  SRR4302540.6101317/1‑94 (MQ=60)

             CTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCG                                                                                  >  SRR4302540.792085/1‑94 (MQ=60)

             CTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCG                                                                                  >  SRR4302540.9676953/1‑94 (MQ=60)

              TGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGT                                                                                 >  SRR4302540.5669442/1‑94 (MQ=60)

                 AGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAA                                                                              >  SRR4302540.1254720/1‑94 (MQ=60)

                 AGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAA                                                                              <  SRR4302540.8084166/94‑1 (MQ=60)

                  GCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAA                                                                             >  SRR4302540.8623017/1‑94 (MQ=60)

                  GCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAA                                                                             <  SRR4302540.3173673/94‑1 (MQ=60)

                  GCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCACCTTACC‑GGGGGCATTTCCTCCGATAAA                                                                             >  SRR4302540.1024237/1‑94 (MQ=60)

                    AATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATC                                                                           >  SRR4302540.9934898/1‑94 (MQ=60)

                     ATTGTGCGTCAGTAGATGATATCTTTAAATTCCAGAGCCTGTCCGTTCAAATATTAACTATCCCCTTACC‑GGGGCCATTTCCTCCGATAAATCC                                                                          <  SRR4302540.2575246/94‑1 (MQ=60)

                      TTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCACCTTACC‑GGGGGCATTTCCTCCGATAAATCCT                                                                         >  SRR4302540.10109184/1‑94 (MQ=60)

                       TGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCAT                                                                        <  SRR4302540.549740/94‑1 (MQ=60)

                       TGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GCGGGCATTTCCTCCGATAAATCCAT                                                                        >  SRR4302540.5453094/1‑94 (MQ=60)

                         TGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAG                                                                      >  SRR4302540.2186293/1‑94 (MQ=60)

                         TGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAG                                                                      <  SRR4302540.4309797/94‑1 (MQ=60)

                          gaggtaggAGATGATGTCTTTAAATTCCAGCGCCTGTCTGCTGAAATATTAACTATCCCCTTCCC‑GGGGGCATTTCCTCCGATAAATCCATAGC                                                                     <  SRR4302540.1090995/86‑1 (MQ=60)

                          GCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGC                                                                     <  SRR4302540.9978571/94‑1 (MQ=60)

                          GCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGC                                                                     >  SRR4302540.3643773/1‑94 (MQ=60)

                          GCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGC                                                                     <  SRR4302540.9471951/94‑1 (MQ=60)

                           CGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCaagcgctagatcggaa                                                                    >  SRR4302540.7713420/1‑78 (MQ=60)

                           CGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCC                                                                    <  SRR4302540.5263145/94‑1 (MQ=60)

                            GTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCC                                                                   <  SRR4302540.7575507/94‑1 (MQ=60)

                            GTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCC                                                                   >  SRR4302540.942701/1‑94 (MQ=60)

                            GTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCC                                                                   >  SRR4302540.6362023/1‑94 (MQ=60)

                            GTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGACC                                                                   >  SRR4302540.2510960/1‑94 (MQ=60)

                            GTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCATTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCC                                                                   <  SRR4302540.1863182/94‑1 (MQ=60)

                             TTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCG                                                                  >  SRR4302540.5596807/1‑94 (MQ=60)

                              TAGTAGATGATGTCTTTCAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGT                                                                 <  SRR4302540.9087388/94‑1 (MQ=60)

                              TAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGT                                                                 <  SRR4302540.7516778/94‑1 (MQ=60)

                              TAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGT                                                                 <  SRR4302540.5155586/94‑1 (MQ=60)

                                GTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTG                                                               <  SRR4302540.303622/94‑1 (MQ=60)

                                GTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTG                                                               <  SRR4302540.4053941/94‑1 (MQ=60)

                                   GATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAAT                                                            <  SRR4302540.3765683/94‑1 (MQ=60)

                                   GATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAAT                                                            >  SRR4302540.3792230/1‑94 (MQ=60)

                                    ATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATT                                                           <  SRR4302540.6132588/94‑1 (MQ=60)

                                    ATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATT                                                           >  SRR4302540.1804332/1‑94 (MQ=60)

                                    ATGATGTCTTTAAATTCCAGAGACCGTCCGTTGAAACATTAACTGTCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATT                                                           <  SRR4302540.6132589/94‑1 (MQ=60)

                                     TGATGTCTTTAAATTCCAGAGACTGTCCGTTGCAATATTAACTCTCCCCTTACC‑GGGGGCATTTCCTCCGGTAAATCCAGAGGCCGTTGCATTA                                                          >  SRR4302540.8247954/1‑94 (MQ=60)

                                     TGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTA                                                          >  SRR4302540.5501059/1‑94 (MQ=60)

                                     TGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTA                                                          >  SRR4302540.7082138/1‑94 (MQ=60)

                                     TGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTA                                                          >  SRR4302540.8247955/1‑94 (MQ=60)

                                     TGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGAGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTA                                                          <  SRR4302540.6523174/94‑1 (MQ=60)

                                      GATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAA                                                         >  SRR4302540.7604043/1‑94 (MQ=60)

                                       ATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAG                                                        <  SRR4302540.5988436/94‑1 (MQ=60)

                                       ATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAG                                                        >  SRR4302540.874820/1‑94 (MQ=60)

                                       ATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAG                                                        >  SRR4302540.7099525/1‑94 (MQ=60)

                                       ATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAG                                                        >  SRR4302540.835525/1‑94 (MQ=60)

                                       ATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAG                                                        >  SRR4302540.8509353/1‑94 (MQ=60)

                                       ATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAG                                                        >  SRR4302540.874821/1‑94 (MQ=60)

                                        TGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGG                                                       <  SRR4302540.493129/94‑1 (MQ=60)

                                        TGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGG                                                       <  SRR4302540.3790456/94‑1 (MQ=60)

                                        TGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGG                                                       >  SRR4302540.3275463/1‑94 (MQ=60)

                                          TCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGT                                                     <  SRR4302540.2248795/94‑1 (MQ=60)

                                           CTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTG                                                    <  SRR4302540.3505711/94‑1 (MQ=60)

                                           CTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTG                                                    <  SRR4302540.939250/94‑1 (MQ=60)

                                            TTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGG                                                   <  SRR4302540.5450288/94‑1 (MQ=60)

                                             TTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGC                                                  >  SRR4302540.9749152/1‑94 (MQ=60)

                                             TTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGC                                                  >  SRR4302540.3420295/1‑94 (MQ=60)

                                              TAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCG                                                 <  SRR4302540.9595655/94‑1 (MQ=60)

                                              TAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCG                                                 <  SRR4302540.9994905/94‑1 (MQ=60)

                                               AAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGCATTAAGGGTGGCGC                                                >  SRR4302540.4657237/1‑94 (MQ=60)

                                               AAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGC                                                <  SRR4302540.1622675/94‑1 (MQ=60)

                                                AATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCC                                               <  SRR4302540.5665788/94‑1 (MQ=60)

                                                AATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCC                                               >  SRR4302540.6871529/1‑94 (MQ=60)

                                                    CCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTA                                           <  SRR4302540.1264489/94‑1 (MQ=60)

                                                    CCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTA                                           >  SRR4302540.730497/1‑94 (MQ=60)

                                                     CAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTAC                                          >  SRR4302540.1877530/1‑94 (MQ=60)

                                                      AGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACT                                         <  SRR4302540.7976149/94‑1 (MQ=60)

                                                      AGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACT                                         >  SRR4302540.1118130/1‑94 (MQ=60)

                                                       GAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTG                                        <  SRR4302540.7758853/94‑1 (MQ=60)

                                                        AGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGA                                       <  SRR4302540.9622481/94‑1 (MQ=60)

                                                         GACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGAA                                      >  SRR4302540.5032196/1‑94 (MQ=60)

                                                         GACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGAGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCACCATTACTGAC                                      >  SRR4302540.6117484/1‑94 (MQ=60)

                                                          ACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACA                                     >  SRR4302540.2784404/1‑94 (MQ=60)

                                                           CTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAT                                    <  SRR4302540.1737559/94‑1 (MQ=60)

                                                           CTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAT                                    >  SRR4302540.9334266/1‑94 (MQ=60)

                                                           CTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAT                                    >  SRR4302540.4606304/1‑94 (MQ=60)

                                                           CTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACAT                                    <  SRR4302540.4505116/94‑1 (MQ=60)

                                                             GTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTT                                  >  SRR4302540.9075237/1‑94 (MQ=60)

                                                             GTCCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTT                                  <  SRR4302540.6359532/94‑1 (MQ=60)

                                                               CCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGCTAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTCC                                >  SRR4302540.9180289/1‑94 (MQ=60)

                                                               CCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTAC                                <  SRR4302540.5320074/94‑1 (MQ=60)

                                                               CCGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTAC                                <  SRR4302540.4079002/94‑1 (MQ=60)

                                                                CGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACG                               >  SRR4302540.8620223/1‑94 (MQ=60)

                                                                CGTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACG                               <  SRR4302540.6504597/94‑1 (MQ=60)

                                                                 GTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGA                              >  SRR4302540.4538020/1‑94 (MQ=60)

                                                                 GTTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGA                              >  SRR4302540.1766314/1‑94 (MQ=60)

                                                                  TTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGAT                             <  SRR4302540.2629357/94‑1 (MQ=60)

                                                                  TTGAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGAT                             >  SRR4302540.9436716/1‑94 (MQ=60)

                                                                   TGAAATATTAACTATCCCCTTACCGGGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGAT                             <  SRR4302540.5151402/94‑1 (MQ=60)

                                                                    GAAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATAC                           <  SRR4302540.3976562/94‑1 (MQ=60)

                                                                    GAAATATTAAC‑ATCCCCTTACC‑CGGGGCATTTTCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATAAC                          >  SRR4302540.2122857/1‑94 (MQ=60)

                                                                     AAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACC                          <  SRR4302540.1924178/94‑1 (MQ=60)

                                                                     AAATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAACCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACC                          >  SRR4302540.2126181/1‑94 (MQ=60)

                                                                       ATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGC                        <  SRR4302540.6321411/94‑1 (MQ=60)

                                                                       ATATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGGTGAATTAAGGGAGGCGCCATTACTGACATTTACGATACCGC                        >  SRR4302540.3303707/1‑94 (MQ=60)

                                                                        TATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCT                       <  SRR4302540.2379314/94‑1 (MQ=60)

                                                                        TATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGCTGGGGCCATTACTGACATTTACGATACAGCT                       >  SRR4302540.97649/1‑94 (MQ=60)

                                                                         ATTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTA                      >  SRR4302540.9668804/1‑94 (MQ=60)

                                                                          TTAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTAC                     >  SRR4302540.870229/1‑94 (MQ=60)

                                                                           TAACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACC                    <  SRR4302540.1380415/94‑1 (MQ=60)

                                                                            AACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTTAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCA                   <  SRR4302540.8131322/94‑1 (MQ=60)

                                                                            AACTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCA                   <  SRR4302540.127494/94‑1 (MQ=60)

                                                                              CTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAA                 >  SRR4302540.1335412/1‑94 (MQ=60)

                                                                              CTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAA                 >  SRR4302540.5536713/1‑94 (MQ=60)

                                                                              CTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAA                 >  SRR4302540.7772100/1‑94 (MQ=60)

                                                                              CTATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATGACTGACATTTACGATCCCGCTACCAAA                 >  SRR4302540.5536712/1‑94 (MQ=60)

                                                                               TATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGATATTTACGATACCGCTACCAAAA                >  SRR4302540.4597447/1‑94 (MQ=60)

                                                                               TATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAA                >  SRR4302540.1246643/1‑94 (MQ=60)

                                                                               TATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAA                >  SRR4302540.8592632/1‑94 (MQ=60)

                                                                                ATCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAAT               <  SRR4302540.1199891/94‑1 (MQ=60)

                                                                                 TCCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATT              <  SRR4302540.4691692/94‑1 (MQ=60)

                                                                                  CCCCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTA             <  SRR4302540.7989549/94‑1 (MQ=60)

                                                                                    CCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACC           >  SRR4302540.4083030/1‑94 (MQ=60)

                                                                                    CCTTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACC           <  SRR4302540.8615801/94‑1 (MQ=60)

                                                                                      TTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGA         >  SRR4302540.6716733/1‑94 (MQ=60)

                                                                                      TTACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGA         <  SRR4302540.8540159/94‑1 (MQ=60)

                                                                                       TCCC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGCGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGAC        <  SRR4302540.3035239/94‑1 (MQ=60)

                                                                                       TACC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGAC        <  SRR4302540.2350249/94‑1 (MQ=60)

                                                                                         CC‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACAT      <  SRR4302540.5962714/94‑1 (MQ=60)

                                                                                          C‑GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATT     <  SRR4302540.4768809/94‑1 (MQ=60)

                                                                                            GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTTCCAAAATTACCGACATTG    <  SRR4302540.324418/94‑1 (MQ=60)

                                                                                            GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTG    >  SRR4302540.3720698/1‑94 (MQ=60)

                                                                                            GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTG    <  SRR4302540.7636030/94‑1 (MQ=60)

                                                                                            GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTG    >  SRR4302540.7546581/1‑94 (MQ=60)

                                                                                            GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTG    >  SRR4302540.7546579/1‑94 (MQ=60)

                                                                                            GGGGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTG    >  SRR4302540.5021494/1‑94 (MQ=60)

                                                                                              GGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTGAT  >  SRR4302540.9274881/1‑94 (MQ=60)

                                                                                              GGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCGCCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTGAT  <  SRR4302540.10010374/94‑1 (MQ=60)

CTAATACACCGACCTGTAGCAATTGTGCGTTAGTAGATGATGTCTTTAAATTCCAGAGACTGTCCGTTGAAATATTAACTATCCCCTTACC‑GGAGGCATTTCCTCCGATAAATCCATAGCCCGTTGAATTAAGGGTGGCACCATTACTGACATTTACGATACCGCTACCAAAATTACCGACATTGAT  >  NC_000913/1594427‑1594613

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 2 ≤` `ATCG/ATCG` `< 26 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`