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	521	238.2	12299412	96.0%	11807435	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,393,106	Δ1 bp	intergenic (‑3443/+857)	tldD ← / ← cafA	TldD/CafA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,393,103	0	T	.	100.0%	1101.3 / NA	234	intergenic (‑3440/+860)	tldD/cafA	TldD/CafA
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (119/115); total (119/115)

Only 100 of 261 total aligned reads displayed.

CAGCCCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGTTTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATA  >  NC_000913/3393011‑3393191

cAGCCCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGt                                                                                          <  2:3139977/93‑1 (MQ=255)

  gCCCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGttt                                                                                        >  1:688315/1‑93 (MQ=255)

    ccGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCCACCAGCTGGCACCGCCCTGgttca                                                                                      >  1:1089010/1‑91 (MQ=255)

    ccGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGtttca                                                                                      >  2:2018206/1‑91 (MQ=255)

     cGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGtttcag                                                                                     >  1:4374322/1‑90 (MQ=255)

       gATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGcc                                                                                  <  1:2725937/93‑1 (MQ=255)

       gATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGcc                                                                                  >  1:2197247/1‑93 (MQ=255)

         ttttCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAg                                                                                >  2:2887776/1‑93 (MQ=255)

          tttCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGa                                                                               <  2:4802970/93‑1 (MQ=255)

          tttCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGa                                                                               >  1:3313626/1‑93 (MQ=255)

           ttCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGAc                                                                              <  1:1912248/93‑1 (MQ=255)

           ttCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGAc                                                                              >  2:4904381/1‑93 (MQ=255)

             cACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGt                                                                            <  1:3340966/93‑1 (MQ=255)

              aCGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTc                                                                           >  1:5231872/1‑93 (MQ=255)

               cgcgTAATATGCGCGGTCAGATTATCCACCGACCGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCa                                                                          >  1:2951784/1‑93 (MQ=255)

               cgcgTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCa                                                                          <  1:1844849/93‑1 (MQ=255)

               cgcgTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCa                                                                          <  2:4235153/93‑1 (MQ=255)

                gcgTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAc                                                                         <  1:2162446/93‑1 (MQ=255)

                gcgTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAc                                                                         <  1:2651535/93‑1 (MQ=255)

                 cgTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAcc                                                                        >  2:3036917/1‑93 (MQ=255)

                 cgTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAcc                                                                        >  2:5131154/1‑93 (MQ=255)

                   tAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAccgc                                                                      >  1:6099327/1‑93 (MQ=255)

                    aaTATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAccgcc                                                                     <  2:3987763/93‑1 (MQ=255)

                      tatGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCGCCGCCCTG‑TTTCAGCCAGACGTCACCGCCgg                                                                   >  1:1130007/1‑93 (MQ=255)

                       atGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGt                                                                  >  2:5631855/1‑93 (MQ=255)

                       atGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGt                                                                  <  2:1890098/93‑1 (MQ=255)

                       atGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGt                                                                  >  2:1013966/1‑93 (MQ=255)

                        tGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGtt                                                                 <  2:352684/93‑1 (MQ=255)

                         gcgcGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTa                                                                >  1:1529935/1‑93 (MQ=255)

                         gcgcGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTa                                                                >  1:1313382/1‑93 (MQ=255)

                         gcgcGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTa                                                                >  2:1862061/1‑93 (MQ=255)

                          cgcgGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTAc                                                               >  2:698505/1‑93 (MQ=255)

                            cgGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACAt                                                             <  1:269271/93‑1 (MQ=255)

                             ggTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATc                                                            >  2:5278457/1‑93 (MQ=255)

                              gTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCg                                                           >  2:3536966/1‑93 (MQ=255)

                               tCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGc                                                          >  2:897057/1‑93 (MQ=255)

                               tCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGc                                                          >  2:499282/1‑93 (MQ=255)

                                  gATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCtt                                                       <  2:617853/93‑1 (MQ=255)

                                  gATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCtt                                                       <  1:5406748/93‑1 (MQ=255)

                                  gATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCtt                                                       >  1:2124452/1‑93 (MQ=255)

                                    ttATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTg                                                     <  1:1400615/93‑1 (MQ=255)

                                     tATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGt                                                    <  2:5679778/93‑1 (MQ=255)

                                      aTCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTc                                                   >  2:1225860/1‑93 (MQ=255)

                                       tCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCg                                                  >  1:1023088/1‑93 (MQ=255)

                                       tCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCg                                                  >  1:5776188/1‑93 (MQ=255)

                                       tCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCCCCGGTTACATCGCCTTTGTCg                                                  >  2:3954950/1‑93 (MQ=255)

                                        ccACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGa                                                 <  1:5579613/93‑1 (MQ=255)

                                        ccACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGa                                                 >  2:2031806/1‑93 (MQ=255)

                                         cACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGAt                                                <  1:675626/93‑1 (MQ=255)

                                         cACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGAt                                                <  1:2894704/93‑1 (MQ=255)

                                         cACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGAt                                                <  2:2983505/93‑1 (MQ=255)

                                          aCCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATc                                               <  1:2301115/93‑1 (MQ=255)

                                          aCCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATc                                               <  1:2783512/93‑1 (MQ=255)

                                          aCCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATc                                               >  2:1486724/1‑93 (MQ=255)

                                           ccGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCg                                              >  2:1254748/1‑93 (MQ=255)

                                           ccGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCg                                              >  1:389115/1‑93 (MQ=255)

                                              aCAGCGTATGCGTTTGCTTCTCGACCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCa                                           <  1:3539403/93‑1 (MQ=255)

                                                aGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATc                                         <  2:2720405/93‑1 (MQ=255)

                                                  cGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCa                                       <  1:4569335/93‑1 (MQ=255)

                                                    tATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGc                                     >  1:4455943/1‑93 (MQ=255)

                                                     aTGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGcc                                    >  2:5853297/1‑93 (MQ=255)

                                                         gTTTGCTTCTCCGCCAACCAGCCGGCCCCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCa                                <  1:3936307/93‑1 (MQ=255)

                                                          tttGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCaa                               <  1:4173438/93‑1 (MQ=255)

                                                          tttGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCaa                               <  1:150961/93‑1 (MQ=255)

                                                             gCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAggg                            >  1:3668928/1‑93 (MQ=255)

                                                             gCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAggg                            <  2:3452766/93‑1 (MQ=255)

                                                              cTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGga                           >  2:3787287/1‑93 (MQ=255)

                                                               ttCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgag                          >  1:2544919/1‑93 (MQ=255)

                                                               ttCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgag                          >  2:5565867/1‑93 (MQ=255)

                                                                tctcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgaga                         >  2:4331767/1‑93 (MQ=255)

                                                                tctcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgaga                         >  1:3577204/1‑93 (MQ=255)

                                                                tctcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgaga                         <  1:249975/93‑1 (MQ=255)

                                                                tctcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgaga                         >  1:1635541/1‑93 (MQ=255)

                                                                tctcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgaga                         <  2:1777478/93‑1 (MQ=255)

                                                                tctcGCCCAACCAGCTGGCACCCCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGgaga                         <  2:2523598/93‑1 (MQ=255)

                                                                  tcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAAc                       <  2:3291368/93‑1 (MQ=255)

                                                                  tcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAAc                       >  1:1222747/1‑93 (MQ=255)

                                                                  tcGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAAc                       >  2:5885163/1‑93 (MQ=255)

                                                                   cGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACt                      <  1:5046062/93‑1 (MQ=255)

                                                                     cccAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACtgt                    >  2:3625294/1‑93 (MQ=255)

                                                                     cccAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACtgt                    <  1:6054126/93‑1 (MQ=255)

                                                                      ccAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACtgtg                   <  2:4627871/93‑1 (MQ=255)

                                                                       cAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGc                  >  2:1447506/1‑93 (MQ=255)

                                                                        aaCCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGcc                 >  1:3165626/1‑93 (MQ=255)

                                                                        aaCCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTAAATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGcc                 >  2:5428387/1‑93 (MQ=255)

                                                                         aCCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCg                >  1:1003126/1‑93 (MQ=255)

                                                                          ccAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGt               >  1:4652871/1‑93 (MQ=255)

                                                                           cAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGtt              <  2:943250/93‑1 (MQ=255)

                                                                            aGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGttt             >  1:6000102/1‑93 (MQ=255)

                                                                             gCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTc            <  2:451480/93‑1 (MQ=255)

                                                                                ggCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAg         <  2:3495927/93‑1 (MQ=255)

                                                                                ggCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAg         >  2:1100335/1‑93 (MQ=255)

                                                                                ggCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGACCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGGTTCCAg         >  2:376335/1‑93 (MQ=255)

                                                                                 gCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAgc        <  2:223342/93‑1 (MQ=255)

                                                                                 gCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAgc        >  1:935517/1‑93 (MQ=255)

                                                                                 gCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTCTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGAGCCGTGTCCAgc        >  1:5477750/1‑93 (MQ=255)

                                                                                     cGCCCTG‑TTTCCGCCAGACGTCACCGCCGTTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCaa    <  2:1892061/93‑1 (MQ=255)

                                                                                     cGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCaa    <  2:2628347/93‑1 (MQ=255)

                                                                                       cccTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAata  >  2:1948561/1‑93 (MQ=255)

                                                                                       cccTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAata  <  2:165596/93‑1 (MQ=255)

CAGCCCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGTTTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATA  >  NC_000913/3393011‑3393191

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 19 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

BRESEQ :: bam2aln output

CCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGTTTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATATTGTCCTG  >  NC_000913/3393015‑3393199

CCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAG                                                                                            >  SRR4302532.4522785/1‑94 (MQ=60)

CCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAG                                                                                            >  SRR4302532.3973995/1‑94 (MQ=60)

CCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAG                                                                                            <  SRR4302532.5027366/94‑1 (MQ=60)

  GGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGTTTT‑AGCC                                                                                          >  SRR4302532.165224/1‑94 (MQ=60)

  GGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCC                                                                                          >  SRR4302532.2270415/1‑94 (MQ=60)

  GGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCC                                                                                          >  SRR4302532.6174537/1‑94 (MQ=60)

   GATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCA                                                                                         <  SRR4302532.2817609/94‑1 (MQ=60)

   GATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCA                                                                                         >  SRR4302532.3261216/1‑94 (MQ=60)

     TTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGA                                                                                       >  SRR4302532.3424131/1‑94 (MQ=60)

     TTTTCACGCGTAATATGCGCGGTCAGAATATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCGTG‑TTTCATCCAGA                                                                                       >  SRR4302532.3424132/1‑94 (MQ=60)

      TTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGAC                                                                                      <  SRR4302532.1334376/94‑1 (MQ=60)

       TTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACG                                                                                     <  SRR4302532.1567470/94‑1 (MQ=60)

       TTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACG                                                                                     <  SRR4302532.1975783/94‑1 (MQ=60)

       TTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACG                                                                                     >  SRR4302532.1106085/1‑94 (MQ=60)

         CACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTC                                                                                   >  SRR4302532.5412296/1‑94 (MQ=60)

         CACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTC                                                                                   <  SRR4302532.3452457/94‑1 (MQ=60)

          ACGCGTAATATGCGCGGTCAGATTATCCACCGACCGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCA                                                                                  >  SRR4302532.3049633/1‑94 (MQ=60)

           CGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAC                                                                                 <  SRR4302532.1906105/94‑1 (MQ=60)

           CGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCAC                                                                                 <  SRR4302532.2224132/94‑1 (MQ=60)

            GCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACC                                                                                <  SRR4302532.2740512/94‑1 (MQ=60)

            GCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACC                                                                                <  SRR4302532.2234759/94‑1 (MQ=60)

            GCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACC                                                                                >  SRR4302532.366168/1‑94 (MQ=60)

             CGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCG                                                                               >  SRR4302532.6235240/1‑94 (MQ=60)

              GTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGC                                                                              >  SRR4302532.6309836/1‑94 (MQ=60)

               TAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCC                                                                             >  SRR4302532.210597/1‑94 (MQ=60)

                AATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCG                                                                            >  SRR4302532.2796574/1‑94 (MQ=60)

                 ATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCGCCGCCCTG‑TTTCAGCCAGACGTCACCGCCGG                                                                           >  SRR4302532.1167719/1‑94 (MQ=60)

                 ATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGG                                                                           >  SRR4302532.5760763/1‑94 (MQ=60)

                    TGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTA                                                                        >  SRR4302532.1581615/1‑94 (MQ=60)

                    TGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTA                                                                        >  SRR4302532.1357309/1‑94 (MQ=60)

                       GCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACAT                                                                     <  SRR4302532.5898276/94‑1 (MQ=60)

                       GCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACAT                                                                     >  SRR4302532.1044049/1‑94 (MQ=60)

                        CGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATC                                                                    <  SRR4302532.2772861/94‑1 (MQ=60)

                        CGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATC                                                                    <  SRR4302532.278594/94‑1 (MQ=60)

                         GGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCG                                                                   >  SRR4302532.5709165/1‑94 (MQ=60)

                         GGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCG                                                                   >  SRR4302532.4319289/1‑94 (MQ=60)

                             AGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTT                                                               >  SRR4302532.2195425/1‑94 (MQ=60)

                             AGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTT                                                               <  SRR4302532.702394/94‑1 (MQ=60)

                              GATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTT                                                              >  SRR4302532.368593/1‑94 (MQ=60)

                              GATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTT                                                              <  SRR4302532.5594064/94‑1 (MQ=60)

                              GATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTT                                                              <  SRR4302532.4008597/94‑1 (MQ=60)

                              GATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTT                                                              >  SRR4302532.6349319/1‑94 (MQ=60)

                                TTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCCGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGT                                                            >  SRR4302532.2440641/1‑94 (MQ=60)

                                TTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGT                                                            <  SRR4302532.1447544/94‑1 (MQ=60)

                                 TATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTC                                                           <  SRR4302532.1538743/94‑1 (MQ=60)

                                  ATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCG                                                          >  SRR4302532.1459755/1‑94 (MQ=60)

                                  ATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCG                                                          >  SRR4302532.5977130/1‑94 (MQ=60)

                                  ATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCG                                                          >  SRR4302532.1057735/1‑94 (MQ=60)

                                   TCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGA                                                         >  SRR4302532.2247904/1‑94 (MQ=60)

                                    CCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGAT                                                        <  SRR4302532.5773332/94‑1 (MQ=60)

                                     CACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATC                                                       <  SRR4302532.2991359/94‑1 (MQ=60)

                                     CACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATC                                                       <  SRR4302532.698874/94‑1 (MQ=60)

                                      CCCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCG                                                      <  SRR4302532.2266327/94‑1 (MQ=60)

                                      ACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCG                                                      <  SRR4302532.2767330/94‑1 (MQ=60)

                                      ACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCG                                                      >  SRR4302532.402719/1‑94 (MQ=60)

                                      ACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCG                                                      <  SRR4302532.2377593/94‑1 (MQ=60)

                                      ACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCG                                                      <  SRR4302532.2876885/94‑1 (MQ=60)

                                        CGACAGCGGATCCGTTTGCTTCTCGCCCACCCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTC                                                    <  SRR4302532.1608088/94‑1 (MQ=60)

                                         GACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCA                                                   <  SRR4302532.1925963/94‑1 (MQ=60)

                                         GACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCA                                                   <  SRR4302532.693450/94‑1 (MQ=60)

                                          ACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCAT                                                  <  SRR4302532.1180558/94‑1 (MQ=60)

                                          ACAGCGTATGCGTTTGCTTCTCGACCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCAT                                                  <  SRR4302532.3657813/94‑1 (MQ=60)

                                            AGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCTCCTTTGTCGATCGTCATCC                                                >  SRR4302532.5661935/1‑94 (MQ=60)

                                            AGCGTATGCGTTTGCTTCTCGCCCAACCAGCCGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCC                                                >  SRR4302532.4662127/1‑94 (MQ=60)

                                             GCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCA                                               <  SRR4302532.4335849/94‑1 (MQ=60)

                                             GCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCA                                               <  SRR4302532.233355/94‑1 (MQ=60)

                                             GCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACATCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCA                                               >  SRR4302532.5375172/1‑94 (MQ=60)

                                             GCGGATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCCCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCA                                               <  SRR4302532.233356/94‑1 (MQ=60)

                                              CGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAG                                              <  SRR4302532.4725185/94‑1 (MQ=60)

                                               GTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGC                                             >  SRR4302532.4607825/1‑94 (MQ=60)

                                               GTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGC                                             >  SRR4302532.1157251/1‑94 (MQ=60)

                                                 ATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCT                                           >  SRR4302532.4268559/1‑94 (MQ=60)

                                                  TGCGTTTGCTTCTCGCCCACCCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTT                                          <  SRR4302532.28632/94‑1 (MQ=60)

                                                    CGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCA                                        >  SRR4302532.1773960/1‑94 (MQ=60)

                                                    CGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCA                                        >  SRR4302532.1193299/1‑94 (MQ=60)

                                                    CGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCA                                        >  SRR4302532.4187613/1‑94 (MQ=60)

                                                     GTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAA                                       >  SRR4302532.1414072/1‑94 (MQ=60)

                                                     GTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAA                                       >  SRR4302532.1279375/1‑94 (MQ=60)

                                                     GTTTGCTTCTCCGCCAACCAGCCGGCCCCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAA                                       <  SRR4302532.4068940/94‑1 (MQ=60)

                                                     GTTTGCGTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAA                                       <  SRR4302532.2725438/94‑1 (MQ=60)

                                                      TTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAG                                      <  SRR4302532.4313410/94‑1 (MQ=60)

                                                      TTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAG                                      <  SRR4302532.156011/94‑1 (MQ=60)

                                                      GTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAG                                      <  SRR4302532.811754/94‑1 (MQ=60)

                                                       TTGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCAAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGG                                     <  SRR4302532.52256/94‑1 (MQ=60)

                                                        tgtcctcccgcccaaaccggtggccctgccctgTTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGG                                     <  SRR4302532.52255/61‑1 (MQ=60)

                                                        TGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGG                                    >  SRR4302532.3792170/1‑94 (MQ=60)

                                                        TGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGG                                    >  SRR4302532.402915/1‑94 (MQ=60)

                                                        TGCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑CTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATTGTCCTACAGCCTTCAAGGG                                    >  SRR4302532.1222463/1‑94 (MQ=60)

                                                         GCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGA                                   <  SRR4302532.628160/94‑1 (MQ=60)

                                                         GCTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGA                                   <  SRR4302532.6069543/94‑1 (MQ=60)

                                                          CTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAG                                  <  SRR4302532.994506/94‑1 (MQ=60)

                                                          CTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAG                                  >  SRR4302532.2629797/1‑94 (MQ=60)

                                                          CTTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAG                                  <  SRR4302532.2621544/94‑1 (MQ=60)

                                                           TTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGA                                 >  SRR4302532.3696891/1‑94 (MQ=60)

                                                           TTCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGA                                 >  SRR4302532.1690905/1‑94 (MQ=60)

                                                           TTCTCGCCCAAACAGCTGGCACCGACCTG‑TTACAGCCAGACGACACCGCCGGTTACCTGGCCTTTGTCGATCGTCATCGAGGCTTCAAGGGCGA                                 >  SRR4302532.1435963/1‑94 (MQ=41)

                                                            TCTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAA                                <  SRR4302532.258676/94‑1 (MQ=60)

                                                             CTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCTGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAAC                               <  SRR4302532.2886622/94‑1 (MQ=60)

                                                             CTCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAAC                               >  SRR4302532.1263646/1‑94 (MQ=60)

                                                              gcgcaCAACCAGCTGGCTCCGCCCTG‑GTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACT                              <  SRR4302532.6308304/89‑1 (MQ=60)

                                                              TCGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACT                              <  SRR4302532.4777539/94‑1 (MQ=60)

                                                               CGCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTG                             <  SRR4302532.5219163/94‑1 (MQ=60)

                                                                GCCCACCCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGT                            <  SRR4302532.2076808/94‑1 (MQ=60)

                                                                GCCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGT                            <  SRR4302532.2790827/94‑1 (MQ=60)

                                                                 gacaaacatgcgggccccgccctgcTTCAGCCAGACGTCACCGCCGGTTACATCTCTTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGT                            <  SRR4302532.3447322/69‑1 (MQ=60)

                                                                 CCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTG                           <  SRR4302532.3551407/94‑1 (MQ=60)

                                                                 CCCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTG                           <  SRR4302532.6263181/94‑1 (MQ=60)

                                                                  CCAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGC                          >  SRR4302532.3695569/1‑94 (MQ=60)

                                                                   CAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCC                         >  SRR4302532.3270760/1‑94 (MQ=60)

                                                                   CAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCC                         >  SRR4302532.3726031/1‑94 (MQ=60)

                                                                   CAACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCC                         <  SRR4302532.816302/94‑1 (MQ=60)

                                                                    AACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCG                        >  SRR4302532.1037274/1‑94 (MQ=60)

                                                                     ACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGT                       >  SRR4302532.4523553/1‑94 (MQ=60)

                                                                     ACCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGT                       >  SRR4302532.4811506/1‑94 (MQ=60)

                                                                      CCAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTT                      >  SRR4302532.3411741/1‑94 (MQ=60)

                                                                       CAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTT                     <  SRR4302532.1868822/94‑1 (MQ=60)

                                                                       CAGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTT                     >  SRR4302532.6207332/1‑94 (MQ=60)

                                                                        AGCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTC                    >  SRR4302532.5597139/1‑94 (MQ=60)

                                                                         GCTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCC                   <  SRR4302532.1063293/94‑1 (MQ=60)

                                                                          CTGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCA                  >  SRR4302532.302334/1‑94 (MQ=60)

                                                                           TGGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAG                 <  SRR4302532.5426589/94‑1 (MQ=60)

                                                                            GGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGC                >  SRR4302532.967572/1‑94 (MQ=60)

                                                                            GGCACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTCTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGAGCCGTGTCCAGC                >  SRR4302532.5667688/1‑94 (MQ=60)

                                                                               ACCGCCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCA             >  SRR4302532.3342128/1‑94 (MQ=60)

                                                                                   CCCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGTAATAT         >  SRR4302532.3147743/1‑94 (MQ=60)

                                                                                    CCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATATT        >  SRR4302532.2163192/1‑94 (MQ=60)

                                                                                    CCTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATATT        <  SRR4302532.2589233/94‑1 (MQ=60)

                                                                                     CTG‑TTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGGTTCCAGCGCAATATTG       >  SRR4302532.6194254/1‑94 (MQ=60)

                                                                                       tgTTTCAGCCAGACGTCACCGCCGGTTAAATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATATTGT      >  SRR4302532.1752315/3‑94 (MQ=60)

                                                                                           TCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATATTGTCCTG  <  SRR4302532.4022247/94‑1 (MQ=60)

CCGGATTTTCACGCGTAATATGCGCGGTCAGATTATCCACCGACAGCGTATGCGTTTGCTTCTCGCCCAACCAGCTGGCACCGCCCTGTTTTCAGCCAGACGTCACCGCCGGTTACATCGCCTTTGTCGATCGTCATCCAGCCTTCAAGGGAGAACTGTGCCGTTTCCAGCGCAATATTGTCCTG  >  NC_000913/3393015‑3393199

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 2 ≤` `ATCG/ATCG` `< 19 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`