Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A1 F1 I2 R1	1475	266.7	13469680	98.2%	13227225	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	.	99.5%	946.2 / ‑2.8	204	intergenic (‑562/‑177)	ompC/yojN	outer membrane protein 1b (Ib;c)/putative 2‑component sensor protein
Reads supporting (aligned to +/- strand): ref base T (0/1); new base . (103/100); total (103/101)
Fisher's exact test for biased strand distribution p-value = 4.95e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.28e-01

Only 100 of 229 total aligned reads displayed.

AAAACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAAT  >  NC_000913/2311239‑2311419

aaaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCt                                                                                          <  1:3432978/93‑1 (MQ=255)

 aaaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCtt                                                                                         <  1:1941476/93‑1 (MQ=255)

  aaCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttt                                                                                        >  1:4270579/1‑93 (MQ=255)

   aCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCtttt                                                                                       <  1:1387967/93‑1 (MQ=255)

   aCTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCtttt                                                                                       <  1:1580618/93‑1 (MQ=255)

    cTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttttg                                                                                      >  1:2677423/1‑92 (MQ=255)

     tataACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgt                                                                                     <  2:1309230/93‑3 (MQ=255)

     tataACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgt                                                                                     <  1:743466/93‑3 (MQ=255)

      ataACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgta                                                                                    >  2:6452744/1‑90 (MQ=255)

      ataACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgta                                                                                    >  2:6017235/1‑90 (MQ=255)

      ataACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCttttgta                                                                                    >  1:3358981/1‑90 (MQ=255)

         aCGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGt                                                                                <  1:4832613/93‑1 (MQ=255)

         aCGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGt                                                                                <  2:2530743/93‑1 (MQ=255)

         aCGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGt                                                                                >  1:5410652/1‑93 (MQ=255)

          cGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGtt                                                                               >  1:1277701/1‑93 (MQ=255)

           gCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTa                                                                              >  1:1733892/1‑93 (MQ=255)

            cTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAt                                                                             >  2:4369008/1‑93 (MQ=255)

              tGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAttt                                                                           >  1:4624262/1‑93 (MQ=255)

              tGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAttt                                                                           >  1:4188717/1‑93 (MQ=255)

                 tAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTa                                                                        >  2:61612/1‑93 (MQ=255)

                   aCTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACa                                                                      <  2:6294045/93‑1 (MQ=255)

                   aCTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACa                                                                      <  1:3756681/93‑1 (MQ=255)

                   aCTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACa                                                                      >  2:3169967/1‑93 (MQ=255)

                    cTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAg                                                                     >  1:1182132/1‑93 (MQ=255)

                    cTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAg                                                                     >  1:234903/1‑93 (MQ=255)

                     tATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGc                                                                    >  2:2843837/1‑93 (MQ=255)

                     tATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGc                                                                    >  2:6581312/1‑93 (MQ=255)

                     tATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGc                                                                    >  1:6638887/1‑93 (MQ=255)

                      aTTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCa                                                                   >  2:3090482/1‑93 (MQ=255)

                      aTTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCa                                                                   >  2:2013980/1‑93 (MQ=255)

                       tttCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCaa                                                                  >  2:5935094/1‑93 (MQ=255)

                        ttCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCaaa                                                                 <  1:3379830/93‑1 (MQ=255)

                          cacaAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAAt                                                               <  1:1765709/93‑1 (MQ=255)

                            caAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATgg                                                             >  1:5879103/1‑93 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                            >  1:345871/1‑93 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                            <  1:595255/93‑1 (MQ=255)

                             aaaTAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgc                                                            <  2:2151693/93‑1 (MQ=255)

                              aataatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgcg                                                           <  2:3672164/93‑1 (MQ=255)

                              aataatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgcg                                                           >  2:4939801/1‑93 (MQ=255)

                               ataatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgcgc                                                          >  1:2779004/1‑93 (MQ=255)

                               ataatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgcgc                                                          >  2:3788338/1‑93 (MQ=255)

                               ataatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGgcgc                                                          >  1:5812104/1‑93 (MQ=255)

                                taatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCt                                                         >  2:5299301/1‑93 (MQ=255)

                                taatTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCt                                                         <  1:6270041/93‑1 (MQ=255)

                                  atTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTg                                                       <  1:674184/93‑1 (MQ=255)

                                  atTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTg                                                       <  1:3278163/93‑1 (MQ=255)

                                    tAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGt                                                      <  2:816623/93‑1 (MQ=255)

                                      aCATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACa                                                   >  2:1894213/1‑93 (MQ=255)

                                        aTCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATc                                                 >  1:5034621/1‑93 (MQ=255)

                                        aTCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATc                                                 >  1:2997861/1‑93 (MQ=255)

                                        aTCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATc                                                 <  1:1071907/93‑1 (MQ=255)

                                        aTCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATc                                                 <  1:4719934/93‑1 (MQ=255)

                                         tCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCt                                                <  2:1683574/93‑1 (MQ=255)

                                           cGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTAt                                              <  1:420284/93‑1 (MQ=255)

                                             cATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTAttt                                            <  1:989932/93‑1 (MQ=255)

                                              aTAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTc                                           >  1:5322150/1‑93 (MQ=255)

                                               tAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTcc                                          >  1:3118772/1‑93 (MQ=255)

                                               tAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTcc                                          <  1:3161866/93‑1 (MQ=255)

                                                  tttCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTccccc                                       <  1:5782753/93‑1 (MQ=255)

                                                  tttCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTccccc                                       <  1:1453900/93‑1 (MQ=255)

                                                   ttCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCGCCa                                      <  1:1303106/93‑1 (MQ=255)

                                                    tCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCaa                                     <  2:2549092/93‑1 (MQ=255)

                                                      cAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATg                                   >  1:5112008/1‑93 (MQ=255)

                                                       aGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGc                                  >  2:5073766/1‑93 (MQ=255)

                                                        gCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCa                                 >  1:4707479/1‑93 (MQ=255)

                                                          aaTCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAgg                               >  1:2170464/1‑93 (MQ=255)

                                                           aTCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGga                              >  1:4468047/1‑93 (MQ=255)

                                                           aTCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGga                              <  1:1664130/93‑1 (MQ=255)

                                                              tttGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgatga                           >  2:2342531/1‑93 (MQ=255)

                                                              tttGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgatga                           >  2:3620895/1‑93 (MQ=255)

                                                              tttGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGgatga                           >  2:4213054/1‑93 (MQ=255)

                                                                 gTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATaa                        >  1:4409552/1‑93 (MQ=255)

                                                                  tttATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATaaa                       <  2:749748/93‑1 (MQ=255)

                                                                  tttATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATaaa                       <  2:5734722/93‑1 (MQ=255)

                                                                    tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                     >  2:4892968/1‑93 (MQ=255)

                                                                    tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                     <  2:4244064/93‑1 (MQ=255)

                                                                    tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                     <  2:1251530/93‑1 (MQ=255)

                                                                    tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                     <  2:3496490/93‑1 (MQ=255)

                                                                    tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                     <  2:3433378/93‑1 (MQ=255)

                                                                    tATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAata                     >  1:3682087/1‑93 (MQ=255)

                                                                      tttGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATc                   <  1:5442408/93‑1 (MQ=255)

                                                                      tttGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATc                   <  2:4797714/93‑1 (MQ=255)

                                                                        tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                 <  2:5060903/93‑1 (MQ=255)

                                                                        tGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAc                 <  1:6209352/93‑1 (MQ=255)

                                                                         gCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACg                >  2:5151000/1‑93 (MQ=255)

                                                                          cAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACgg               <  1:4788896/93‑1 (MQ=255)

                                                                            attattTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGga             <  2:4282372/93‑1 (MQ=255)

                                                                               attTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGaa          <  2:5700691/93‑1 (MQ=255)

                                                                                tttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAt         >  2:4083223/1‑93 (MQ=255)

                                                                                tttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAt         >  2:3003590/1‑93 (MQ=255)

                                                                                tttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAt         >  1:4036226/1‑93 (MQ=255)

                                                                                 ttttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATa        <  2:5787186/93‑1 (MQ=255)

                                                                                  tttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATag       <  1:6340395/93‑1 (MQ=255)

                                                                                  tttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATag       >  2:2416437/1‑93 (MQ=255)

                                                                                  tttGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATag       >  1:4360600/1‑93 (MQ=255)

                                                                                   ttgttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATaga      <  2:637418/93‑1 (MQ=255)

                                                                                    tgttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATagag     <  1:3624579/93‑1 (MQ=255)

                                                                                     gttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAgaga    >  1:243962/1‑93 (MQ=255)

                                                                                      ttgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGaa   <  2:677804/93‑1 (MQ=255)

                                                                                       tgGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAat  <  1:2620957/93‑1 (MQ=255)

AAAACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAAT  >  NC_000913/2311239‑2311419

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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

ACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAATCA  >  NC_000913/2311242‑2311428

ACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTG                                                                                               >  SRR4302536.2757437/1‑94 (MQ=60)

ACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTG                                                                                               <  SRR4302536.1626913/94‑1 (MQ=60)

ACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTG                                                                                               <  SRR4302536.1429303/94‑1 (MQ=60)

  TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTA                                                                                            <  SRR4302536.765287/94‑1 (MQ=60)

  TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTA                                                                                            >  SRR4302536.3458673/1‑94 (MQ=60)

  TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTA                                                                                            >  SRR4302536.3551666/1‑94 (MQ=60)

  TATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTA                                                                                            >  SRR4302536.3708742/1‑94 (MQ=60)

   ATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAG                                                                                           >  SRR4302536.3178204/1‑94 (MQ=60)

     AACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGT                                                                                         >  SRR4302536.5572327/1‑94 (MQ=60)

      ACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTT                                                                                        >  SRR4302536.1315958/1‑94 (MQ=60)

      ACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTT                                                                                        >  SRR4302536.172327/1‑94 (MQ=60)

      ACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTT                                                                                        <  SRR4302536.4978032/94‑1 (MQ=60)

      ACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTT                                                                                        <  SRR4302536.5709861/94‑1 (MQ=60)

       CGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTA                                                                                       >  SRR4302536.1783911/1‑94 (MQ=60)

        GCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTAT                                                                                      >  SRR4302536.4776672/1‑94 (MQ=60)

         CTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATT                                                                                     >  SRR4302536.4854418/1‑94 (MQ=60)

          TTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTT                                                                                    >  SRR4302536.4313178/1‑94 (MQ=60)

          TTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTT                                                                                    >  SRR4302536.4763226/1‑94 (MQ=60)

           TGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGGTATTTG                                                                                   >  SRR4302536.1118713/1‑94 (MQ=60)

              TAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTAC                                                                                <  SRR4302536.6883404/94‑1 (MQ=60)

               AACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACA                                                                               <  SRR4302536.4624536/94‑1 (MQ=60)

                ACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAG                                                                              >  SRR4302536.241143/1‑94 (MQ=60)

                ACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAG                                                                              >  SRR4302536.1217719/1‑94 (MQ=60)

                ACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAG                                                                              <  SRR4302536.3868913/94‑1 (MQ=60)

                 CTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGC                                                                             >  SRR4302536.1338557/1‑94 (MQ=60)

                 CTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGC                                                                             >  SRR4302536.6836309/1‑94 (MQ=60)

                  TATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCA                                                                            >  SRR4302536.1464810/1‑94 (MQ=60)

                     TTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAA                                                                         <  SRR4302536.3480269/94‑1 (MQ=60)

                     TTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAA                                                                         >  SRR4302536.2527389/1‑94 (MQ=60)

                       CACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATG                                                                       <  SRR4302536.1819094/94‑1 (MQ=60)

                        ACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGG                                                                      <  SRR4302536.1929393/94‑1 (MQ=60)

                        ACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGG                                                                      >  SRR4302536.6054233/1‑94 (MQ=60)

                         CAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGC                                                                     >  SRR4302536.355044/1‑94 (MQ=60)

                         CAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGC                                                                     >  SRR4302536.2443878/1‑94 (MQ=60)

                         CAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGC                                                                     <  SRR4302536.6512115/94‑1 (MQ=60)

                          AAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCG                                                                    <  SRR4302536.611670/94‑1 (MQ=60)

                          AAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCG                                                                    >  SRR4302536.5217038/1‑94 (MQ=60)

                          AAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCG                                                                    >  SRR4302536.6430781/1‑94 (MQ=60)

                           AATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGC                                                                   >  SRR4302536.5985225/1‑94 (MQ=60)

                           AATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGC                                                                   >  SRR4302536.2861552/1‑94 (MQ=60)

                            ATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCT                                                                  <  SRR4302536.1629755/94‑1 (MQ=60)

                             TAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTT                                                                 >  SRR4302536.29950/1‑94 (MQ=60)

                             TAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTT                                                                 <  SRR4302536.6456849/94‑1 (MQ=60)

                             TAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTT                                                                 <  SRR4302536.1564128/94‑1 (MQ=60)

                             TAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTT                                                                 <  SRR4302536.1695896/94‑1 (MQ=60)

                              AATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTG                                                                <  SRR4302536.4645386/94‑1 (MQ=60)

                               ATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGT                                                               <  SRR4302536.3374523/94‑1 (MQ=60)

                               ATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGT                                                               <  SRR4302536.693917/94‑1 (MQ=60)

                                TTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTA                                                              <  SRR4302536.1284859/94‑1 (MQ=60)

                                    CATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATC                                                          >  SRR4302536.3086012/1‑94 (MQ=60)

                                    CATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATC                                                          >  SRR4302536.5185532/1‑94 (MQ=60)

                                     ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         <  SRR4302536.4861953/94‑1 (MQ=60)

                                     ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         <  SRR4302536.1103978/94‑1 (MQ=60)

                                     ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         <  SRR4302536.551064/94‑1 (MQ=60)

                                     ATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCT                                                         <  SRR4302536.3384053/94‑1 (MQ=60)

                                      TCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGGTATTTGGACAGCAACATGGCGCTTGTACATCTA                                                        >  SRR4302536.554963/1‑94 (MQ=60)

                                        CGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATT                                                      >  SRR4302536.4965090/1‑94 (MQ=60)

                                        CGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATT                                                      <  SRR4302536.431356/94‑1 (MQ=60)

                                        CGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATT                                                      <  SRR4302536.439532/94‑1 (MQ=60)

                                         GCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTT                                                     >  SRR4302536.4397024/1‑94 (MQ=60)

                                          CATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTC                                                    <  SRR4302536.4525200/94‑1 (MQ=60)

                                          CATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTC                                                    >  SRR4302536.751470/1‑94 (MQ=60)

                                          CATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTC                                                    >  SRR4302536.5481139/1‑94 (MQ=60)

                                          CATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTC                                                    <  SRR4302536.1019135/94‑1 (MQ=60)

                                           ATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCC                                                   >  SRR4302536.3102748/1‑94 (MQ=60)

                                           ATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCC                                                   >  SRR4302536.3209874/1‑94 (MQ=60)

                                            TAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCC                                                  <  SRR4302536.3254483/94‑1 (MQ=60)

                                              ATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCC                                                <  SRR4302536.3765966/94‑1 (MQ=60)

                                              ATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCC                                                <  SRR4302536.4162814/94‑1 (MQ=60)

                                               TTTCCAGCGATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCA                                               <  SRR4302536.2708920/94‑1 (MQ=60)

                                               TTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCA                                               <  SRR4302536.5954863/94‑1 (MQ=60)

                                               TTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCA                                               <  SRR4302536.1496958/94‑1 (MQ=60)

                                                TTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCGCCAA                                              <  SRR4302536.1342028/94‑1 (MQ=60)

                                                  CCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATG                                            >  SRR4302536.5264765/1‑94 (MQ=60)

                                                    AGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCA                                          >  SRR4302536.4849061/1‑94 (MQ=60)

                                                    AGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCA                                          <  SRR4302536.3249392/94‑1 (MQ=60)

                                                    AGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCA                                          >  SRR4302536.2194661/1‑94 (MQ=60)

                                                    AGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCA                                          <  SRR4302536.3715203/94‑1 (MQ=60)

                                                      CAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGG                                        <  SRR4302536.1811435/94‑1 (MQ=60)

                                                      CAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGG                                        >  SRR4302536.2235812/1‑94 (MQ=60)

                                                      CAATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGG                                        <  SRR4302536.5979852/94‑1 (MQ=60)

                                                       AATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGA                                       >  SRR4302536.4602268/1‑94 (MQ=60)

                                                        ATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGAT                                      >  SRR4302536.2844426/1‑94 (MQ=60)

                                                        ATCTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGAT                                      <  SRR4302536.1712417/94‑1 (MQ=60)

                                                          CTTTGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCATGATGA                                    >  SRR4302536.4914031/1‑94 (MQ=60)

                                                             TGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAA                                 <  SRR4302536.5266913/94‑1 (MQ=60)

                                                             TGTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAA                                 >  SRR4302536.4541473/1‑94 (MQ=60)

                                                              GTTTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAA                                >  SRR4302536.3469630/1‑94 (MQ=60)

                                                                TTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATA                              <  SRR4302536.2542999/94‑1 (MQ=60)

                                                                TTATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATA                              >  SRR4302536.3792154/1‑94 (MQ=60)

                                                                  ATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATC                            >  SRR4302536.2208947/1‑94 (MQ=60)

                                                                  ATTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATCCAGGATGATAAATATC                            <  SRR4302536.438768/94‑1 (MQ=60)

                                                                   TTTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCA                           <  SRR4302536.5605198/94‑1 (MQ=60)

                                                                    TTGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCAC                          <  SRR4302536.4873110/94‑1 (MQ=60)

                                                                     TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         <  SRR4302536.6394341/94‑1 (MQ=60)

                                                                     TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         <  SRR4302536.5845515/94‑1 (MQ=60)

                                                                     TGCAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACG                         >  SRR4302536.3336023/1‑94 (MQ=60)

                                                                       CAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       <  SRR4302536.4933061/94‑1 (MQ=60)

                                                                       CAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       <  SRR4302536.6358418/94‑1 (MQ=60)

                                                                       CAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       >  SRR4302536.3997023/1‑94 (MQ=60)

                                                                       CAATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGG                       >  SRR4302536.6263435/1‑94 (MQ=60)

                                                                        AATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGA                      >  SRR4302536.3831124/1‑94 (MQ=60)

                                                                        AATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATAACGGGG                      >  SRR4302536.6788265/1‑94 (MQ=60)

                                                                         ATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAG                     >  SRR4302536.2339992/1‑94 (MQ=60)

                                                                         ATTATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAG                     <  SRR4302536.6101973/94‑1 (MQ=60)

                                                                            ATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAT                  >  SRR4302536.95763/1‑94 (MQ=60)

                                                                            ATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAT                  >  SRR4302536.3411880/1‑94 (MQ=60)

                                                                            ATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAT                  >  SRR4302536.4155914/1‑94 (MQ=60)

                                                                            ATTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAAT                  >  SRR4302536.5455241/1‑94 (MQ=60)

                                                                             TTTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATA                 <  SRR4302536.1364941/94‑1 (MQ=60)

                                                                              TTTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAG                >  SRR4302536.4490956/1‑94 (MQ=60)

                                                                               TTTGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGA               <  SRR4302536.6529259/94‑1 (MQ=60)

                                                                                 TGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGA             <  SRR4302536.3732971/94‑1 (MQ=60)

                                                                                 TGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGA             >  SRR4302536.4566429/1‑94 (MQ=60)

                                                                                 TGTTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGA             >  SRR4302536.250467/1‑94 (MQ=60)

                                                                                   TTGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAAT           >  SRR4302536.6023288/1‑94 (MQ=60)

                                                                                    TGGGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATC          <  SRR4302536.2699578/94‑1 (MQ=60)

                                                                                     GGGC‑TTTTGGAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCA         >  SRR4302536.6703546/1‑94 (MQ=60)

                                                                                      GGC‑TTTTGTAGGTTATTTGTGCAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCAT        <  SRR4302536.1443728/94‑1 (MQ=60)

                                                                                      GGC‑TTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCAT        <  SRR4302536.2339532/94‑1 (MQ=60)

                                                                                        gcTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATC       >  SRR4302536.111300/3‑94 (MQ=60)

                                                                                        gcTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATC       >  SRR4302536.6235369/3‑94 (MQ=60)

                                                                                         cttgTGTAGGTGATTTGTACAGCAAAATGGCGCTTGTACATCTATGTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCA      <  SRR4302536.1564895/90‑1 (MQ=60)

                                                                                           TTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAAT    <  SRR4302536.6358838/94‑1 (MQ=60)

                                                                                           TTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAAT    <  SRR4302536.5852783/94‑1 (MQ=60)

                                                                                           TTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAAT    >  SRR4302536.1962061/1‑94 (MQ=60)

                                                                                             TGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAATCA  <  SRR4302536.6391072/94‑1 (MQ=60)

ACTATAACGCTTGTTAACTATTTCACAAATAATTAACATCCGCATAATTTCCAGCAATCTTTGTTTATTTGCAATTATTTTTGTTGGGCTTTTTGTAGGTTATTTGTACAGCAAAATGGCGCTTGTACATCTATTTCCCCCAATGCAGGATGATAAATATCACGGGAGAATAGAGAATCATCAATCA  >  NC_000913/2311242‑2311428

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 23 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`