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	1357	179.3	9500450	96.1%	9129932	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,311,335	(T)_5→4	intergenic (‑566/‑173)	ompC ← / → yojN	outer membrane protein 1b (Ib;c)/putative 2‑component sensor protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,311,331	0	T	.	98.6%	936.3 / 6.3	212	intergenic (‑562/‑177)	ompC/yojN	outer membrane protein 1b (Ib;c)/putative 2‑component sensor protein
Reads supporting (aligned to +/- strand): ref base T (3/0); new base . (76/130); total (79/133)
Fisher's exact test for biased strand distribution p-value = 5.27e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

Only 100 of 235 total aligned reads displayed.

AAAACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAA  >  NC_000913/2311239‑2311418

aaaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCt                                                                                         <  1:4737947/93‑1 (MQ=255)

aaaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCt                                                                                         >  2:1690950/1‑93 (MQ=255)

 aaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCtt                                                                                        >  1:3117688/1‑93 (MQ=255)

 aaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCtt                                                                                        >  1:4166940/1‑93 (MQ=255)

 aaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCtt                                                                                        >  2:1607801/1‑93 (MQ=255)

  aaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCttt                                                                                       >  1:4219041/1‑93 (MQ=255)

      ataACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgta                                                                                   >  2:2921128/1‑90 (MQ=255)

       taACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgtag                                                                                  <  2:1152619/93‑5 (MQ=255)

          cGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGtt                                                                              <  2:1356228/93‑1 (MQ=255)

          cGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGtt                                                                              <  1:4355629/93‑1 (MQ=255)

          cGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGtt                                                                              <  1:2868966/93‑1 (MQ=255)

           gCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTa                                                                             <  2:196551/93‑1 (MQ=255)

           gCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTa                                                                             <  2:2289984/93‑1 (MQ=255)

            cTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAt                                                                            <  2:1099768/93‑1 (MQ=255)

             ttGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAtt                                                                           <  2:3038524/93‑1 (MQ=255)

             ttGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAtt                                                                           >  2:376452/1‑93 (MQ=255)

             ttGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAtt                                                                           >  1:3445944/1‑93 (MQ=255)

              tGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAttt                                                                          <  1:2639111/93‑1 (MQ=255)

              tGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAttt                                                                          <  1:3568149/93‑1 (MQ=255)

              tGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAttt                                                                          <  2:4144100/93‑1 (MQ=255)

              tGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATCTTTGTTGGGC‑TTTTGTAGGTTAttt                                                                          <  1:2626924/93‑1 (MQ=255)

                ttAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGt                                                                        >  2:2556011/1‑93 (MQ=255)

                 tAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTa                                                                       >  1:1101663/1‑93 (MQ=255)

                  aaCTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTAc                                                                      >  2:425827/1‑93 (MQ=255)

                   aCTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACa                                                                     >  1:2187333/1‑93 (MQ=255)

                    cTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAg                                                                    <  2:3387289/93‑1 (MQ=255)

                      aTTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCa                                                                  >  2:928981/1‑93 (MQ=255)

                      aTTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCa                                                                  >  1:1852492/1‑93 (MQ=255)

                      aTTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCa                                                                  >  2:3616840/1‑93 (MQ=255)

                         tCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCaaaa                                                               >  2:430035/1‑93 (MQ=255)

                         tCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCaaaa                                                               >  1:2036273/1‑93 (MQ=255)

                         tCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCaaaa                                                               <  2:4361700/93‑1 (MQ=255)

                           acaAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATg                                                             <  1:1363179/93‑1 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                           <  2:3970632/93‑1 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                           >  1:1148066/1‑93 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                           >  2:2749961/1‑93 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                           <  1:4405878/93‑1 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                           >  1:4584311/1‑93 (MQ=255)

                              aataatTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgcg                                                          >  1:2703908/1‑93 (MQ=255)

                               ataatTAACATCCGCTAAATTTCC‑GCTATCCTTTGGTAATTTCAATTTATTTTTGTT‑GGCCTTTGGTA‑GTTATTTGTACAGCAAAATGGCGCt                                                        <  1:4091709/93‑1 (MQ=255)

                                taatTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCt                                                        <  2:2665968/93‑1 (MQ=255)

                                taatTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCt                                                        >  1:985406/1‑93 (MQ=255)

                                 aatTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCtt                                                       <  1:70419/93‑1 (MQ=255)

                                  atTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTg                                                      <  2:4399492/93‑1 (MQ=255)

                                  atTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTg                                                      <  1:1423850/93‑1 (MQ=255)

                                    tAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTa                                                    <  1:125630/93‑1 (MQ=255)

                                        aTCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATc                                                >  2:2719458/1‑93 (MQ=255)

                                        aTCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATc                                                <  1:4144932/93‑1 (MQ=255)

                                         tCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTGCAGCAAAATGGCGCTTGTACATCt                                               >  2:147036/1‑93 (MQ=255)

                                          ccGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTa                                              <  1:3592269/93‑1 (MQ=255)

                                               tAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTcc                                         <  1:595203/93‑1 (MQ=255)

                                               tAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTcc                                         <  2:568329/93‑1 (MQ=255)

                                                aaTTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTccc                                        <  2:1758109/93‑1 (MQ=255)

                                                 aTTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTcccc                                       >  1:2082318/1‑93 (MQ=255)

                                                  tttCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTccccc                                      <  1:2566917/93‑1 (MQ=255)

                                                      cAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATg                                  >  1:4519208/1‑93 (MQ=255)

                                                       aGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGc                                 <  2:152440/93‑1 (MQ=255)

                                                       aGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGc                                 >  2:2070860/1‑93 (MQ=255)

                                                         cAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAg                               <  2:1550166/93‑1 (MQ=255)

                                                           aT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGga                             <  2:3717005/93‑1 (MQ=255)

                                                           aT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGga                             <  1:3154676/93‑1 (MQ=255)

                                                           aT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGga                             <  1:2897396/93‑1 (MQ=255)

                                                           aT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGga                             >  1:4442250/1‑93 (MQ=255)

                                                            t‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgat                            <  2:2377165/93‑1 (MQ=255)

                                                            t‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgat                            <  1:894809/93‑1 (MQ=255)

                                                            t‑CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgat                            <  2:2894878/93‑1 (MQ=255)

                                                               tttGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgatg                           >  2:4029475/1‑93 (MQ=255)

                                                               tttGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgatga                          >  2:919145/1‑93 (MQ=255)

                                                                ttGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgatgat                         <  2:33107/93‑1 (MQ=255)

                                                                   tttATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATaaa                      >  2:3157760/1‑93 (MQ=255)

                                                                   tttATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATaaa                      <  2:4663487/93‑1 (MQ=255)

                                                                   tttATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATaaa                      <  1:2971158/93‑1 (MQ=255)

                                                                     tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                    <  2:3189220/93‑1 (MQ=255)

                                                                      aTTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCACAATGGCGCTTGTACATCTATTTACCCCCATGCAGGATGATAAatat                   >  1:2932248/1‑93 (MQ=255)

                                                                      aTTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAatat                   <  2:4572250/93‑1 (MQ=255)

                                                                       tttGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATc                  <  1:2396315/93‑1 (MQ=255)

                                                                        ttGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCa                 >  2:799790/1‑93 (MQ=255)

                                                                        ttGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCa                 >  1:4338635/1‑93 (MQ=255)

                                                                         tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                >  2:327934/1‑93 (MQ=255)

                                                                         tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                <  1:4673168/93‑1 (MQ=255)

                                                                         tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                <  1:3312577/93‑1 (MQ=255)

                                                                         tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                <  2:4673562/93‑1 (MQ=255)

                                                                         tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                <  1:3865881/93‑1 (MQ=255)

                                                                          gCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACg               >  1:1086534/1‑93 (MQ=255)

                                                                          gCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACg               >  1:173451/1‑93 (MQ=255)

                                                                            aaTTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACggg             >  1:3405015/1‑93 (MQ=255)

                                                                             attattTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGga            >  2:4091971/1‑93 (MQ=255)

                                                                             attattTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGga            >  1:559476/1‑93 (MQ=255)

                                                                             attattTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGga            <  1:2058150/93‑1 (MQ=255)

                                                                                attTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGaa         <  1:683492/93‑1 (MQ=255)

                                                                                attTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGaa         >  2:2432511/1‑93 (MQ=255)

                                                                                  ttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATa       <  2:3684467/93‑1 (MQ=255)

                                                                                  ttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATa       <  1:3846110/93‑1 (MQ=255)

                                                                                  ttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATa       <  2:4160328/93‑1 (MQ=255)

                                                                                  ttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATa       <  2:2053299/93‑1 (MQ=255)

                                                                                  ttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTGCCCCCAATGCAGGATGATAAATATCACGGGAGAATa       <  1:3068312/93‑1 (MQ=255)

                                                                                   tttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATag      <  2:668122/93‑1 (MQ=255)

                                                                                    ttgttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATaga     <  2:3638978/93‑1 (MQ=255)

                                                                                      gttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAgaga   >  2:1235299/1‑93 (MQ=255)

                                                                                       ttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGaa  <  1:1555578/93‑1 (MQ=255)

AAAACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAAT‑CTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAA  >  NC_000913/2311239‑2311418

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAATCA  >  NC_000913/2311244‑2311428

TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTA                                                                                            <  SRR4302544.3597592/94‑1 (MQ=60)

TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTA                                                                                            <  SRR4302544.1657669/94‑1 (MQ=60)

 ATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAG                                                                                           <  SRR4302544.943486/94‑1 (MQ=60)

 ATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAG                                                                                           >  SRR4302544.1453202/1‑94 (MQ=60)

 ATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAG                                                                                           >  SRR4302544.2902966/1‑94 (MQ=60)

    ACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTT                                                                                        >  SRR4302544.2069350/1‑94 (MQ=60)

    ACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTT                                                                                        >  SRR4302544.2644379/1‑94 (MQ=60)

     CGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTA                                                                                       <  SRR4302544.2896658/94‑1 (MQ=60)

     CGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTA                                                                                       <  SRR4302544.4399856/94‑1 (MQ=60)

      GCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAT                                                                                      <  SRR4302544.3224294/94‑1 (MQ=60)

       CTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATT                                                                                     >  SRR4302544.3478863/1‑94 (MQ=60)

         TGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTG                                                                                   <  SRR4302544.3602361/94‑1 (MQ=60)

         TGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTG                                                                                   <  SRR4302544.2664408/94‑1 (MQ=60)

         TGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATCTTTGTTGGGC‑TTTTGTAGGTTATTTG                                                                                   <  SRR4302544.2652112/94‑1 (MQ=60)

         TGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATCTTTGTTGGGC‑TTTTGTAGGTTATTTG                                                                                   <  SRR4302544.2652113/94‑1 (MQ=60)

           TTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTA                                                                                 >  SRR4302544.1112639/1‑94 (MQ=60)

             AACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACA                                                                               >  SRR4302544.2208009/1‑94 (MQ=60)

                TATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCA                                                                            >  SRR4302544.1870413/1‑94 (MQ=60)

                 ATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAA                                                                           >  SRR4302544.424564/1‑94 (MQ=60)

                   TTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAA                                                                         >  SRR4302544.2055949/1‑94 (MQ=60)

                   TTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAA                                                                         >  SRR4302544.1430253/1‑94 (MQ=60)

                    TCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAAT                                                                        <  SRR4302544.4436097/94‑1 (MQ=60)

                    TCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAAT                                                                        <  SRR4302544.3433992/94‑1 (MQ=60)

                    TCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAAT                                                                        >  SRR4302544.2086839/1‑94 (MQ=60)

                    TCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAAT                                                                        <  SRR4302544.4584449/94‑1 (MQ=60)

                    TCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAAT                                                                        >  SRR4302544.578785/1‑94 (MQ=60)

                     CACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATG                                                                       >  SRR4302544.1290083/1‑94 (MQ=60)

                      ACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGG                                                                      <  SRR4302544.1376723/94‑1 (MQ=60)

                       CAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGC                                                                     >  SRR4302544.1159485/1‑94 (MQ=60)

                       CAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGC                                                                     >  SRR4302544.3614499/1‑94 (MQ=60)

                       CAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGC                                                                     >  SRR4302544.4629954/1‑94 (MQ=60)

                        AAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCG                                                                    >  SRR4302544.2729905/1‑94 (MQ=60)

                        AAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCG                                                                    <  SRR4302544.4450380/94‑1 (MQ=60)

                        AAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTCTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCG                                                                    <  SRR4302544.3926028/94‑1 (MQ=60)

                          ATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCT                                                                  >  SRR4302544.995068/1‑94 (MQ=60)

                          ATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCT                                                                  <  SRR4302544.3965585/94‑1 (MQ=60)

                           TAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTT                                                                 <  SRR4302544.227859/94‑1 (MQ=60)

                            AATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTG                                                                <  SRR4302544.71106/94‑1 (MQ=60)

                             ATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGT                                                               <  SRR4302544.1438020/94‑1 (MQ=60)

                               TAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTAC                                                             <  SRR4302544.3603685/94‑1 (MQ=60)

                               TAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTAC                                                             <  SRR4302544.2956897/94‑1 (MQ=60)

                               TAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTAC                                                             <  SRR4302544.126788/94‑1 (MQ=60)

                                  CATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATC                                                          <  SRR4302544.4221383/94‑1 (MQ=60)

                                   ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         <  SRR4302544.4185965/94‑1 (MQ=60)

                                   ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         >  SRR4302544.4281144/1‑94 (MQ=60)

                                   ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         >  SRR4302544.1106641/1‑94 (MQ=60)

                                     CCGCATAATTTCCAGCAATCTTTGTTTATTTGTAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTAT                                                       <  SRR4302544.764295/94‑1 (MQ=60)

                                     CCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTAT                                                       <  SRR4302544.3626769/94‑1 (MQ=60)

                                        CATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTC                                                    <  SRR4302544.551958/94‑1 (MQ=60)

                                        CATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTC                                                    >  SRR4302544.3147068/1‑94 (MQ=60)

                                         ATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCC                                                   >  SRR4302544.664985/1‑94 (MQ=60)

                                          TAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCC                                                  <  SRR4302544.601046/94‑1 (MQ=60)

                                           AATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCC                                                 >  SRR4302544.2102343/1‑94 (MQ=60)

                                            ATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCC                                                <  SRR4302544.4538059/94‑1 (MQ=60)

                                            ATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCC                                                <  SRR4302544.3803944/94‑1 (MQ=60)

                                             TTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCA                                               <  SRR4302544.2591580/94‑1 (MQ=60)

                                               TCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAAT                                             <  SRR4302544.4769396/94‑1 (MQ=60)

                                                CCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATG                                            >  SRR4302544.4564462/1‑94 (MQ=60)

                                                   GCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAG                                         <  SRR4302544.1916186/94‑1 (MQ=60)

                                                   GCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAG                                         <  SRR4302544.2958755/94‑1 (MQ=60)

                                                    CAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGG                                        >  SRR4302544.2039445/1‑94 (MQ=60)

                                                    CAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGG                                        >  SRR4302544.4387105/1‑94 (MQ=60)

                                                     AATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGA                                       >  SRR4302544.1439445/1‑94 (MQ=60)

                                                     AATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGA                                       >  SRR4302544.4487032/1‑94 (MQ=60)

                                                      ATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGAT                                      <  SRR4302544.2925303/94‑1 (MQ=60)

                                                      ATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGAT                                      <  SRR4302544.3184685/94‑1 (MQ=60)

                                                      ATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAAAGCAGGAT                                      <  SRR4302544.1166161/94‑1 (MQ=60)

                                                       TCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATG                                     <  SRR4302544.1248251/94‑1 (MQ=60)

                                                       TCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATG                                     <  SRR4302544.903659/94‑1 (MQ=60)

                                                        CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGA                                    >  SRR4302544.985801/1‑94 (MQ=60)

                                                        CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGA                                    <  SRR4302544.612483/94‑1 (MQ=60)

                                                         TTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGAT                                   >  SRR4302544.2846128/1‑94 (MQ=60)

                                                          TTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATA                                  <  SRR4302544.342728/94‑1 (MQ=60)

                                                           TGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAA                                 >  SRR4302544.2166131/1‑94 (MQ=60)

                                                             TTTATTTGCAATTATTTTTGTTGGTC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAAT                               <  SRR4302544.4497485/94‑1 (MQ=60)

                                                             TTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAAT                               <  SRR4302544.2999644/94‑1 (MQ=60)

                                                               TATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCACAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATAT                             >  SRR4302544.2960427/1‑94 (MQ=60)

                                                               TATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCACAATGGCGCTTGTACATCTATTTACCCCCATGCAGGATGATAAATAT                             >  SRR4302544.2960426/1‑94 (MQ=60)

                                                                ATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATC                            <  SRR4302544.1817175/94‑1 (MQ=60)

                                                                 TTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCA                           <  SRR4302544.2419038/94‑1 (MQ=60)

                                                                 TTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCA                           >  SRR4302544.4382786/1‑94 (MQ=60)

                                                                   TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         <  SRR4302544.4719355/94‑1 (MQ=60)

                                                                   TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         >  SRR4302544.1097340/1‑94 (MQ=60)

                                                                   TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         <  SRR4302544.3344119/94‑1 (MQ=60)

                                                                   TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         >  SRR4302544.175163/1‑94 (MQ=60)

                                                                   TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         <  SRR4302544.3904266/94‑1 (MQ=60)

                                                                    GCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGG                        <  SRR4302544.4724229/94‑1 (MQ=60)

                                                                     CAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       >  SRR4302544.1146770/1‑94 (MQ=60)

                                                                     CAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       >  SRR4302544.3437571/1‑94 (MQ=60)

                                                                     CAATTATGTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       <  SRR4302544.2600549/94‑1 (MQ=60)

                                                                      AATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGA                      >  SRR4302544.564944/1‑94 (MQ=60)

                                                                       ATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAG                     <  SRR4302544.2077949/94‑1 (MQ=60)

                                                                       ATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAG                     <  SRR4302544.4686700/94‑1 (MQ=60)

                                                                        TTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGA                    >  SRR4302544.4181334/1‑94 (MQ=60)

                                                                          ATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAT                  <  SRR4302544.690288/94‑1 (MQ=60)

                                                                           TTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATA                 >  SRR4302544.4450228/1‑94 (MQ=60)

                                                                            TTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAG                <  SRR4302544.3884270/94‑1 (MQ=60)

                                                                            TTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTGCCCCCAATGCAGGATGATAAATATCACGGGAGAATAG                <  SRR4302544.3097557/94‑1 (MQ=60)

                                                                              TTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAG              <  SRR4302544.70301/94‑1 (MQ=60)

                                                                              TTGTTGGG‑GTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAG              <  SRR4302544.2707654/94‑1 (MQ=60)

                                                                               TGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGA             <  SRR4302544.2138104/94‑1 (MQ=60)

                                                                                GTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAA            >  SRR4302544.3898723/1‑94 (MQ=60)

                                                                                 TTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAAT           <  SRR4302544.2515631/94‑1 (MQ=60)

                                                                                 TTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAAT           <  SRR4302544.1571056/94‑1 (MQ=60)

                                                                                 TTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAAT           <  SRR4302544.4459306/94‑1 (MQ=60)

                                                                                   GGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCA         >  SRR4302544.1142001/1‑94 (MQ=60)

                                                                                    GGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCAT        <  SRR4302544.4517037/94‑1 (MQ=60)

                                                                                       CTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCA      <  SRR4302544.1810384/94‑1 (MQ=60)

                                                                                       CTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCA      >  SRR4302544.1909093/1‑94 (MQ=60)

                                                                                       CTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCA      >  SRR4302544.2749681/1‑94 (MQ=60)

                                                                                         TTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAAT    <  SRR4302544.2210093/94‑1 (MQ=60)

                                                                                           TGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAATCA  <  SRR4302544.125599/94‑1 (MQ=60)

TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAATCA  >  NC_000913/2311244‑2311428

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`