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	882	254.4	12957588	98.0%	12698436	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	561,757	G→A	V65M (GTG→ATG)	sfmH →	involved in fimbrial asembly

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	561,757	0	G	A	99.7%	1019.6 / NA	285	V65M (GTG→ATG)	sfmH	involved in fimbrial asembly
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (97/187); minor base C (1/0); total (98/187)
Fisher's exact test for biased strand distribution p-value = 3.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 291 total aligned reads displayed.

GCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGGTGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTA  >  NC_000913/561668‑561846

gCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCtgatga                                                                                        <  2:3284790/93‑1 (MQ=255)

 cACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGaa                                                                                       <  2:5448776/93‑1 (MQ=255)

  aCCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAAt                                                                                      >  1:6241775/1‑93 (MQ=255)

    cAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATta                                                                                    <  1:158205/93‑1 (MQ=255)

     aaTAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATtat                                                                                   <  1:1688325/93‑1 (MQ=255)

       tAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatac                                                                                 <  1:1753325/93‑1 (MQ=255)

       tAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatac                                                                                 <  2:1864829/93‑1 (MQ=255)

        aaCCAGGCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTataca                                                                                <  1:6175080/93‑1 (MQ=255)

        aaCCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTataca                                                                                >  2:2659839/1‑93 (MQ=255)

         aCCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatacat                                                                               <  2:815276/93‑1 (MQ=255)

          ccagccagGGCGGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatacata                                                                              <  2:870404/93‑1 (MQ=255)

          ccagccagGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatacata                                                                              <  1:1128347/93‑1 (MQ=255)

          ccagccagGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatacata                                                                              <  2:6222598/93‑1 (MQ=255)

          ccagccagGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatacata                                                                              >  2:4436193/1‑93 (MQ=255)

          ccagccagGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTatacata                                                                              <  1:2349980/93‑1 (MQ=255)

               cagGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTa                                                                         >  2:6431155/1‑93 (MQ=255)

               cagGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTa                                                                         <  2:2155305/93‑1 (MQ=255)

                agGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAg                                                                        <  2:290310/93‑1 (MQ=255)

                 gggCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGt                                                                       <  2:5761449/93‑1 (MQ=255)

                 gggCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGt                                                                       >  1:2070196/1‑93 (MQ=255)

                 gggCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGt                                                                       >  2:2453713/1‑93 (MQ=255)

                 gggCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGt                                                                       >  2:2243199/1‑93 (MQ=255)

                 gggCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGt                                                                       <  1:5474876/93‑1 (MQ=255)

                 gggCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGt                                                                       <  1:4101280/93‑1 (MQ=255)

                     aGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATg                                                                   >  1:4336542/1‑93 (MQ=255)

                      gATTGTTGTTTTACCGGCAAAATCCTGCTGGGTTGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCTGAGATATGt                                                                  >  2:4638224/1‑93 (MQ=255)

                      gATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGt                                                                  <  1:2796493/93‑1 (MQ=255)

                       aTTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTc                                                                 <  1:6075527/93‑1 (MQ=255)

                        ttgttgTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCa                                                                >  1:1344701/1‑93 (MQ=255)

                            tgttTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCaa                                                            >  1:4040121/1‑93 (MQ=255)

                            tgttTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCaa                                                            <  1:355765/93‑1 (MQ=255)

                              ttttACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACt                                                          >  2:108804/1‑93 (MQ=255)

                               tttACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACtt                                                         >  1:1873268/1‑93 (MQ=255)

                               tttACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACtt                                                         <  1:707629/93‑1 (MQ=255)

                                 tACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTa                                                       >  2:1975971/1‑93 (MQ=255)

                                 tACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTa                                                       <  2:1602206/93‑1 (MQ=255)

                                  aCCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTAt                                                      <  2:2574717/93‑1 (MQ=255)

                                  aCCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTAt                                                      <  1:138695/93‑1 (MQ=255)

                                  aCCAGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTAt                                                      <  2:5883241/93‑1 (MQ=255)

                                   ccGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTAtt                                                     <  1:1150375/93‑1 (MQ=255)

                                        aaaaTCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCa                                                <  2:2357725/93‑1 (MQ=255)

                                        aaaaTCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCa                                                <  1:3766248/93‑1 (MQ=255)

                                         aaaTCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAg                                               >  2:1454460/1‑93 (MQ=255)

                                          aaTCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAgg                                              <  1:5100417/93‑1 (MQ=255)

                                           aTCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGa                                             <  2:678888/93‑1 (MQ=255)

                                           aTCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGa                                             <  2:1705711/93‑1 (MQ=255)

                                            tCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGaa                                            >  2:5798563/1‑93 (MQ=255)

                                              cGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAAc                                          <  2:1008029/93‑1 (MQ=255)

                                                  tGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATc                                      >  1:4126839/1‑93 (MQ=255)

                                                   gggTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCg                                     >  1:91432/1‑93 (MQ=255)

                                                    gttAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGa                                    <  2:2117372/91‑1 (MQ=255)

                                                    ggTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGa                                    <  2:2819860/93‑1 (MQ=255)

                                                    ggTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGa                                    <  2:5978356/93‑1 (MQ=255)

                                                    ggTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGa                                    >  1:307292/1‑93 (MQ=255)

                                                    ggTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGa                                    >  2:3359780/1‑93 (MQ=255)

                                                     gTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGAt                                   <  1:4673381/93‑1 (MQ=255)

                                                       aGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATaa                                 <  1:2142818/93‑1 (MQ=255)

                                                        ggTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTa                                        >  1:2673144/1‑85 (MQ=255)

                                                        ggTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAAt                                <  2:2853794/93‑1 (MQ=255)

                                                         gtgtCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAAtt                               <  1:498750/93‑1 (MQ=255)

                                                           gtCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATtat                             >  1:830904/1‑93 (MQ=255)

                                                            tctcAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATtata                            <  2:3891608/93‑1 (MQ=255)

                                                             ctcAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATaa                           <  2:1195255/93‑1 (MQ=255)

                                                              tcAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATaaa                          >  1:5083975/1‑93 (MQ=255)

                                                              tcAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATaaa                          >  2:5567005/1‑93 (MQ=255)

                                                                 gCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAatat                       >  1:3200210/1‑93 (MQ=255)

                                                                  cAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAatata                      <  2:3116809/93‑1 (MQ=255)

                                                                  cAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAatata                      <  1:4785289/93‑1 (MQ=255)

                                                                  cAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAatata                      <  1:2632194/93‑1 (MQ=255)

                                                                   aaTTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAatatat                     >  1:5338282/1‑93 (MQ=255)

                                                                    aTTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATg                    >  1:5236511/1‑93 (MQ=255)

                                                                    aTTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATg                    <  2:6004391/93‑1 (MQ=255)

                                                                    aTTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATg                    <  2:5688727/93‑1 (MQ=255)

                                                                     tttGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGc                   <  2:3007236/93‑1 (MQ=255)

                                                                     tttGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGc                   <  2:5164155/93‑1 (MQ=255)

                                                                      ttGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCa                  <  2:4271459/93‑1 (MQ=255)

                                                                        gTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAAt                <  1:5684182/93‑1 (MQ=255)

                                                                         tCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAAtt               <  1:3446739/93‑1 (MQ=255)

                                                                         tCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAAtt               >  2:3820310/1‑93 (MQ=255)

                                                                          ccACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTa              <  2:713620/93‑1 (MQ=255)

                                                                          ccACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTa              <  1:1015372/93‑1 (MQ=255)

                                                                          ccACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTa              <  1:2507021/93‑1 (MQ=255)

                                                                            ccccGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACa            <  1:6406118/92‑1 (MQ=255)

                                                                            ccccGGTACACTTATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACa            <  2:403223/92‑1 (MQ=255)

                                                                            aCCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACa            <  1:4954971/93‑1 (MQ=255)

                                                                            aCCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACa            <  1:365694/93‑1 (MQ=255)

                                                                             cccGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAt           <  2:5400650/93‑1 (MQ=255)

                                                                             cccGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAt           >  1:3863663/1‑93 (MQ=255)

                                                                              ccGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATg          >  2:4051333/1‑93 (MQ=255)

                                                                               cGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGa         <  2:5255208/93‑1 (MQ=255)

                                                                                ggTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGAt        <  2:4202078/93‑1 (MQ=255)

                                                                                ggTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGAt        <  2:3985206/93‑1 (MQ=255)

                                                                                  tACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTa      <  2:2691600/93‑1 (MQ=255)

                                                                                   aCGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTAt     <  1:5831533/93‑1 (MQ=255)

                                                                                    cGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATc    <  2:3608207/93‑1 (MQ=255)

                                                                                    cGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATc    <  1:455727/93‑1 (MQ=255)

                                                                                    cGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATc    <  1:3334849/93‑1 (MQ=255)

                                                                                    cGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATc    <  2:4688546/93‑1 (MQ=255)

                                                                                    cGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATc    >  2:3774495/1‑93 (MQ=255)

                                                                                      cTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTa  <  2:4999715/93‑1 (MQ=255)

GCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGGTGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTA  >  NC_000913/561668‑561846

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 26 ≤` `ATCG/ATCG` `< 31 ≤` `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

AATAGCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGGTGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATTA  >  NC_000913/561664‑561849

AATAGCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGA                                                                                              >  SRR4302537.4013109/1‑94 (MQ=60)

AATAGCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGA                                                                                              >  SRR4302537.4495860/1‑94 (MQ=60)

 ATAGCACCAATAGCCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGAT                                                                                             <  SRR4302537.62786/94‑1 (MQ=60)

 ATAGCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGAT                                                                                             >  SRR4302537.5283661/1‑94 (MQ=60)

 ATAGCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGAT                                                                                             >  SRR4302537.3459925/1‑94 (MQ=60)

     CACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAAT                                                                                         >  SRR4302537.4607243/1‑94 (MQ=60)

     CACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAAT                                                                                         >  SRR4302537.6284678/1‑94 (MQ=60)

      ACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATT                                                                                        >  SRR4302537.5320950/1‑94 (MQ=60)

       CCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTA                                                                                       <  SRR4302537.2803500/94‑1 (MQ=60)

        CAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTAT                                                                                      <  SRR4302537.159329/94‑1 (MQ=60)

         AATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATA                                                                                     >  SRR4302537.2468773/1‑94 (MQ=60)

         AATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATA                                                                                     <  SRR4302537.5213780/94‑1 (MQ=60)

         AATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATA                                                                                     >  SRR4302537.2191545/1‑94 (MQ=60)

         AATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATA                                                                                     <  SRR4302537.1700148/94‑1 (MQ=60)

         AATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATA                                                                                     <  SRR4302537.4530675/94‑1 (MQ=60)

          ATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATAC                                                                                    >  SRR4302537.6215069/1‑94 (MQ=60)

           TAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACA                                                                                   <  SRR4302537.1765547/94‑1 (MQ=60)

            AACCAGGCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACAT                                                                                  <  SRR4302537.6217608/94‑1 (MQ=60)

            AACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACAT                                                                                  <  SRR4302537.3975207/94‑1 (MQ=60)

            AACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACAT                                                                                  <  SRR4302537.4810852/94‑1 (MQ=60)

             ACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATA                                                                                 <  SRR4302537.6261186/94‑1 (MQ=60)

             ACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATA                                                                                 <  SRR4302537.4149677/94‑1 (MQ=60)

              CCAGCCAGGGCAGATTGTTGTTTTACCTGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATAC                                                                                <  SRR4302537.2937330/94‑1 (MQ=60)

              CCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATAC                                                                                <  SRR4302537.113927/94‑1 (MQ=60)

              CCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATAC                                                                                <  SRR4302537.1136177/94‑1 (MQ=60)

              CCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATAC                                                                                <  SRR4302537.2366527/94‑1 (MQ=60)

               CAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACC                                                                               <  SRR4302537.1201779/94‑1 (MQ=60)

                 GCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGT                                                                             >  SRR4302537.4168553/1‑94 (MQ=60)

                 GCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGT                                                                             >  SRR4302537.2153253/1‑94 (MQ=60)

                  CCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTA                                                                            <  SRR4302537.3359675/94‑1 (MQ=60)

                   CAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAG                                                                           <  SRR4302537.1612913/94‑1 (MQ=60)

                   CAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAG                                                                           >  SRR4302537.3669131/1‑94 (MQ=60)

                    AGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGT                                                                          <  SRR4302537.1088725/94‑1 (MQ=60)

                    AGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGT                                                                          >  SRR4302537.2084744/1‑94 (MQ=60)

                     GGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTT                                                                         <  SRR4302537.4129917/94‑1 (MQ=60)

                     GGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTT                                                                         <  SRR4302537.5512240/94‑1 (MQ=60)

                      GGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTA                                                                        <  SRR4302537.1860108/94‑1 (MQ=60)

                        CAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATG                                                                      >  SRR4302537.4366649/1‑94 (MQ=60)

                        CAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATG                                                                      >  SRR4302537.4366650/1‑94 (MQ=60)

                          GATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTC                                                                    <  SRR4302537.2823294/94‑1 (MQ=60)

                          GATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTC                                                                    <  SRR4302537.2816046/94‑1 (MQ=60)

                           ATTGTTTTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCA                                                                   <  SRR4302537.4068673/94‑1 (MQ=60)

                           ATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCA                                                                   >  SRR4302537.1354070/1‑94 (MQ=60)

                           ATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCA                                                                   <  SRR4302537.6117280/94‑1 (MQ=60)

                           ATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCA                                                                   >  SRR4302537.356601/1‑94 (MQ=60)

                           ATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCA                                                                   >  SRR4302537.5489028/1‑94 (MQ=60)

                            TTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCAC                                                                  >  SRR4302537.1511572/1‑94 (MQ=60)

                              GTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCA                                                                >  SRR4302537.670046/1‑94 (MQ=60)

                               TTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAA                                                               >  SRR4302537.4068383/1‑94 (MQ=60)

                                TGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAAC                                                              <  SRR4302537.2691646/94‑1 (MQ=60)

                                TGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAAC                                                              <  SRR4302537.358236/94‑1 (MQ=60)

                                  TTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTT                                                            >  SRR4302537.1886302/1‑94 (MQ=60)

                                  TTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTT                                                            <  SRR4302537.5689404/94‑1 (MQ=60)

                                   TTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTT                                                           <  SRR4302537.712471/94‑1 (MQ=60)

                                     TACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTAT                                                         >  SRR4302537.3390682/1‑94 (MQ=60)

                                     TACCGGAAAAAGCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTAT                                                         <  SRR4302537.3860007/94‑1 (MQ=60)

                                      ACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATT                                                        <  SRR4302537.139687/94‑1 (MQ=60)

                                      ACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATT                                                        <  SRR4302537.6425849/94‑1 (MQ=60)

                                       CCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTG                                                       <  SRR4302537.1158372/94‑1 (MQ=60)

                                       CCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTG                                                       <  SRR4302537.924912/94‑1 (MQ=60)

                                        CGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGT                                                      <  SRR4302537.2533938/94‑1 (MQ=60)

                                           AAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCA                                                   <  SRR4302537.1700997/94‑1 (MQ=60)

                                            AAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAG                                                  <  SRR4302537.1883880/94‑1 (MQ=60)

                                            AAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAG                                                  <  SRR4302537.3792691/94‑1 (MQ=60)

                                             AAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGG                                                 <  SRR4302537.4694305/94‑1 (MQ=60)

                                              AATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGA                                                <  SRR4302537.1391324/94‑1 (MQ=60)

                                              AATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGA                                                <  SRR4302537.5135558/94‑1 (MQ=60)

                                               ATCCGGCTGGGTAGGTGTCTCAGCAATTTGTGCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAA                                               <  SRR4302537.4135225/94‑1 (MQ=60)

                                                 CCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAAC                                             >  SRR4302537.6063908/1‑94 (MQ=60)

                                                    GCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTAT                                          <  SRR4302537.2747733/94‑1 (MQ=60)

                                                    GCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTAT                                          <  SRR4302537.4821492/94‑1 (MQ=60)

                                                     CTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATC                                         <  SRR4302537.5007358/94‑1 (MQ=60)

                                                     CTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATC                                         >  SRR4302537.4155643/1‑94 (MQ=60)

                                                      TGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCG                                        >  SRR4302537.92099/1‑94 (MQ=60)

                                                      TGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCG                                        >  SRR4302537.1579610/1‑94 (MQ=60)

                                                       GGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGA                                       <  SRR4302537.4047208/94‑1 (MQ=60)

                                                       GGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGA                                       >  SRR4302537.4954130/1‑94 (MQ=60)

                                                       GGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGA                                       >  SRR4302537.309423/1‑94 (MQ=60)

                                                        GGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGAT                                      <  SRR4302537.5756178/94‑1 (MQ=60)

                                                        GGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGAT                                      <  SRR4302537.377812/94‑1 (MQ=60)

                                                        GGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGAT                                      <  SRR4302537.5081846/94‑1 (MQ=60)

                                                         GTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATA                                     <  SRR4302537.4705714/94‑1 (MQ=60)

                                                           AGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATacggaat                                   >  SRR4302537.2691814/1‑87 (MQ=60)

                                                           AGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAAT                                   <  SRR4302537.1142474/94‑1 (MQ=60)

                                                           AGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAAT                                   <  SRR4302537.2659094/94‑1 (MQ=60)

                                                           AGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAAT                                   <  SRR4302537.2157894/94‑1 (MQ=60)

                                                           AGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAAT                                   >  SRR4302537.3581591/1‑94 (MQ=60)

                                                            GGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATT                                  >  SRR4302537.4997442/1‑94 (MQ=60)

                                                            GGTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATT                                  <  SRR4302537.5825272/94‑1 (MQ=60)

                                                             GTGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTA                                 <  SRR4302537.502177/94‑1 (MQ=60)

                                                              TGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTAT                                <  SRR4302537.260817/94‑1 (MQ=60)

                                                              TGTCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTAT                                >  SRR4302537.836588/1‑94 (MQ=60)

                                                                TCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAA                              <  SRR4302537.6133993/94‑1 (MQ=60)

                                                                TCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAA                              >  SRR4302537.1357694/1‑94 (MQ=60)

                                                                TCTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAA                              <  SRR4302537.407821/94‑1 (MQ=60)

                                                                 CTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATGCCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAA                             <  SRR4302537.5496445/94‑1 (MQ=60)

                                                                 CTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAA                             <  SRR4302537.1722169/94‑1 (MQ=60)

                                                                 CTCAGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAA                             >  SRR4302537.5118964/1‑94 (MQ=60)

                                                                  TCAGCAATTTGTACACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAAT                            <  SRR4302537.1315120/94‑1 (MQ=60)

                                                                    AGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATAT                          >  SRR4302537.3222709/1‑94 (MQ=60)

                                                                    AGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATAT                          <  SRR4302537.955876/94‑1 (MQ=60)

                                                                    AGCAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATAT                          <  SRR4302537.2156891/94‑1 (MQ=60)

                                                                      CAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATAT                        <  SRR4302537.4818321/94‑1 (MQ=60)

                                                                      CAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATAT                        <  SRR4302537.2028756/94‑1 (MQ=60)

                                                                      CAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATAT                        >  SRR4302537.5374878/1‑94 (MQ=60)

                                                                      CAATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATAT                        <  SRR4302537.2650623/94‑1 (MQ=60)

                                                                       AATTTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATG                       >  SRR4302537.5272537/1‑94 (MQ=60)

                                                                          TTGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAA                    <  SRR4302537.3241080/94‑1 (MQ=60)

                                                                           TGTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAAT                   <  SRR4302537.1639991/94‑1 (MQ=60)

                                                                            GTCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATT                  <  SRR4302537.5723058/94‑1 (MQ=60)

                                                                             TCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTA                 <  SRR4302537.3471116/94‑1 (MQ=60)

                                                                             TCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTA                 >  SRR4302537.5237937/1‑94 (MQ=60)

                                                                             TCCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTA                 <  SRR4302537.667841/94‑1 (MQ=60)

                                                                              CCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTAC                <  SRR4302537.2524658/94‑1 (MQ=60)

                                                                              CCACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTAC                <  SRR4302537.1022362/94‑1 (MQ=60)

                                                                               CACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACA               <  SRR4302537.3610343/94‑1 (MQ=60)

                                                                               CACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACA               <  SRR4302537.5986074/94‑1 (MQ=60)

                                                                                CCCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              <  SRR4302537.6449719/94‑1 (MQ=60)

                                                                                ACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              >  SRR4302537.3890712/1‑94 (MQ=60)

                                                                                ACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              <  SRR4302537.746510/94‑1 (MQ=60)

                                                                                ACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              <  SRR4302537.88480/94‑1 (MQ=60)

                                                                                ACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              <  SRR4302537.4989136/94‑1 (MQ=60)

                                                                                ACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              >  SRR4302537.3103039/1‑94 (MQ=60)

                                                                                ACCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACAT              <  SRR4302537.368234/94‑1 (MQ=60)

                                                                                 CCCGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATG             <  SRR4302537.3152478/94‑1 (MQ=60)

                                                                                   CGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGAT           >  SRR4302537.4352642/1‑94 (MQ=60)

                                                                                   CGGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGAT           <  SRR4302537.4771629/94‑1 (MQ=60)

                                                                                    GGTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATT          <  SRR4302537.33567/94‑1 (MQ=60)

                                                                                     GTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTA         <  SRR4302537.2206461/94‑1 (MQ=60)

                                                                                     GTACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTA         >  SRR4302537.5069196/1‑94 (MQ=60)

                                                                                      TACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTAT        <  SRR4302537.1914867/94‑1 (MQ=60)

                                                                                      TACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTAT        <  SRR4302537.5130403/94‑1 (MQ=60)

                                                                                      TACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTAT        <  SRR4302537.5324931/94‑1 (MQ=60)

                                                                                       ACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATC       <  SRR4302537.5871498/94‑1 (MQ=60)

                                                                                       ACGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATC       <  SRR4302537.6382740/94‑1 (MQ=60)

                                                                                        CGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCT      <  SRR4302537.458872/94‑1 (MQ=60)

                                                                                        CGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCT      >  SRR4302537.887149/1‑94 (MQ=60)

                                                                                        CGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCT      <  SRR4302537.3358448/94‑1 (MQ=60)

                                                                                        CGCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCT      >  SRR4302537.5667940/1‑94 (MQ=60)

                                                                                         GCTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTA     >  SRR4302537.3700896/1‑94 (MQ=60)

                                                                                          CTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTAT    >  SRR4302537.5292027/1‑94 (MQ=60)

                                                                                          CTGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTAT    <  SRR4302537.6225335/94‑1 (MQ=60)

                                                                                           TGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATT   >  SRR4302537.3089684/1‑94 (MQ=60)

                                                                                           TGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATT   <  SRR4302537.695649/94‑1 (MQ=60)

                                                                                           TGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATT   >  SRR4302537.5208576/1‑94 (MQ=60)

                                                                                           TGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATT   >  SRR4302537.4247269/1‑94 (MQ=60)

                                                                                           TGATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATT   >  SRR4302537.2749628/1‑94 (MQ=60)

                                                                                            GATGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATTA  <  SRR4302537.4565127/94‑1 (MQ=60)

AATAGCACCAATAACCAGCCAGGGCAGATTGTTGTTTTACCGGAAAAATCCGGCTGGGTAGGTGTCTCAGCAATTTGTCCACCCGGTACGCTGGTGAATTATACATACCGTAGTTATGTCACCAACTTTATTGTTCAGGAAACTATCGATAATTATAAATATATGCAATTACATGATTATCTATTA  >  NC_000913/561664‑561849

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 23 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`