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	744	338.8	17650688	97.8%	17262372	93.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,098,156	A→G	T19A (ACA→GCA)	ycdX →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,098,156	0	A	G	99.6%	922.0 / ‑5.1	266	T19A (ACA→GCA)	ycdX	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (124/141); total (124/142)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.91e-01

Only 100 of 271 total aligned reads displayed.

GCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCACATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCG  >  NC_000913/1098066‑1098245

  tATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCAtt                                                                                       >  2:3639629/1‑93 (MQ=255)

   aTCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTa                                                                                      >  1:2807029/1‑93 (MQ=255)

    tCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTaa                                                                                     <  1:767518/93‑1 (MQ=255)

    tCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTaa                                                                                     >  1:2579877/1‑93 (MQ=255)

    tCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTaa                                                                                     >  2:2768877/1‑93 (MQ=255)

     ccTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAg                                                                                    <  1:5461790/93‑1 (MQ=255)

     ccTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAg                                                                                    >  2:6083269/1‑93 (MQ=255)

      cTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGt                                                                                   <  1:139275/93‑1 (MQ=255)

      cTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGt                                                                                   <  2:4473114/93‑1 (MQ=255)

       ttGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTg                                                                                  <  2:4507533/93‑1 (MQ=255)

        tGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGa                                                                                 <  2:1703945/93‑1 (MQ=255)

        tGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGa                                                                                 >  2:6049151/1‑93 (MQ=255)

         ggCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGAt                                                                                <  2:7676168/93‑1 (MQ=255)

          gCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGAtt                                                                               <  1:3983049/93‑1 (MQ=255)

           cGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTa                                                                              <  1:6897641/93‑1 (MQ=255)

           cGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTa                                                                              <  1:3560498/93‑1 (MQ=255)

            gggAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTAc                                                                             <  2:6464459/93‑1 (MQ=255)

              gAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACAt                                                                           <  1:7092554/93‑1 (MQ=255)

              gAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACAt                                                                           <  1:8157501/93‑1 (MQ=255)

              gAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACAt                                                                           <  2:4458989/93‑1 (MQ=255)

               aaTTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACAtt                                                                          <  2:511604/93‑1 (MQ=255)

                aTTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTg                                                                         <  1:5798601/93‑1 (MQ=255)

                 ttGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGc                                                                        >  1:7555964/1‑93 (MQ=255)

                 atGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGc                                                                        <  2:6839746/92‑1 (MQ=255)

                    aaTACCGGAGAGAATTTTGTATCCCCTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCa                                                                     <  1:8528841/93‑1 (MQ=255)

                    aaTACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCa                                                                     <  2:1474734/93‑1 (MQ=255)

                     aTACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAg                                                                    >  1:4673029/1‑93 (MQ=255)

                     aTACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAg                                                                    >  1:1117198/1‑93 (MQ=255)

                     aTACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAg                                                                    >  2:8320194/1‑93 (MQ=255)

                     aTACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAg                                                                    >  2:7298303/1‑93 (MQ=255)

                        cAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGcc                                                                 >  2:4100351/1‑93 (MQ=255)

                         aGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCca                                                                <  2:3233267/93‑1 (MQ=255)

                          ggAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCcaa                                                               <  1:8597252/93‑1 (MQ=255)

                             gagagTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCcaaaca                                                            <  2:6143075/93‑1 (MQ=255)

                             gagagTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCcaaaca                                                            >  2:2727861/1‑93 (MQ=255)

                              agagTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCcaaacaa                                                           >  2:7125253/1‑93 (MQ=255)

                                 gTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAg                                                        >  1:6129993/1‑93 (MQ=255)

                                 gTTATCTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATGGCCCAGGCCAAACAAAAg                                                        <  2:3768872/93‑1 (MQ=255)

                                  ttATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAgg                                                       >  1:157206/1‑93 (MQ=255)

                                   tATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAggg                                                      >  2:8141411/1‑93 (MQ=255)

                                    aTGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGc                                                     >  2:5772408/1‑93 (MQ=255)

                                     tGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCa                                                    >  1:1032613/1‑93 (MQ=255)

                                     tGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCa                                                    <  1:452052/93‑1 (MQ=255)

                                         tCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTaa                                                >  1:299738/1‑93 (MQ=255)

                                          cccGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTaaa                                               >  2:1543922/1‑93 (MQ=255)

                                          cccGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTaaa                                               >  1:5046730/1‑93 (MQ=255)

                                           ccGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTaaat                                              >  2:7478918/1‑92 (MQ=255)

                                           ccGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAAc                                              <  1:1707410/93‑1 (MQ=255)

                                             gTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACtt                                            <  2:4979028/93‑1 (MQ=255)

                                             gTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACtt                                            <  2:3406849/93‑1 (MQ=255)

                                              tCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACttt                                           >  1:6614052/1‑93 (MQ=255)

                                               cgtccTTCATATGCATACCATTGCCAACACACATGCATGTAGCGCATTAAGTAATTACATTGCCCAAACCAGACATAAGAGCATTAAACttta                                          <  2:7835914/90‑2 (MQ=255)

                                                gACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACttttt                                         <  1:942274/93‑1 (MQ=255)

                                                gACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACttttt                                         <  2:7957373/93‑1 (MQ=255)

                                                 aCCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTg                                        <  2:1993913/93‑1 (MQ=255)

                                                  ccTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGc                                       <  2:5835120/93‑1 (MQ=255)

                                                  ccTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGc                                       <  1:6517989/93‑1 (MQ=255)

                                                   cTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCg                                      >  1:6754260/1‑93 (MQ=255)

                                                    ttCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGa                                     >  1:5898338/1‑93 (MQ=255)

                                                     tCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGAt                                    >  2:2312092/1‑93 (MQ=255)

                                                     tCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGAt                                    <  1:5828285/93‑1 (MQ=255)

                                                      cATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATc                                   >  2:3048193/1‑93 (MQ=255)

                                                       atatGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCa                                  <  1:1096446/93‑1 (MQ=255)

                                                       atatGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCa                                  >  2:6898432/1‑93 (MQ=255)

                                                        tatGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCAc                                 <  1:2188089/93‑1 (MQ=255)

                                                        tatGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCAc                                 >  1:7163937/1‑93 (MQ=255)

                                                         atGCATACCGTTGCCAGCACACATGCATATAGCGAATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCAcc                                >  1:5681/1‑93 (MQ=255)

                                                             aTACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATc                            <  2:4598711/93‑1 (MQ=255)

                                                             aTACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATc                            <  2:432553/93‑1 (MQ=255)

                                                              tACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCa                           <  1:2678447/93‑1 (MQ=255)

                                                                 cGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATgg                        >  1:8386595/1‑93 (MQ=255)

                                                                  gTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGc                       >  1:5226893/1‑93 (MQ=255)

                                                                  gTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGc                       >  1:3642750/1‑93 (MQ=255)

                                                                   ttGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGcc                      >  1:7933957/1‑93 (MQ=255)

                                                                   ttGCCAGCACACATGCATATAGCACATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGcc                      <  1:8094315/93‑1 (MQ=255)

                                                                    tGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGccc                     <  1:3337414/93‑1 (MQ=255)

                                                                     gCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCg                    <  2:2146079/93‑1 (MQ=255)

                                                                     gCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCg                    <  2:5599091/93‑1 (MQ=255)

                                                                       cAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGa                  <  1:4782774/93‑1 (MQ=255)

                                                                           acacaTGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATg              >  1:5597761/1‑93 (MQ=255)

                                                                             acaTGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGa            <  1:2826933/93‑1 (MQ=255)

                                                                              caTGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGaa           >  2:8545896/1‑93 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTATACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGa         <  1:7043784/93‑1 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGa         <  2:380991/93‑1 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGa         <  2:5384272/93‑1 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGa         <  1:4275892/93‑1 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGa         <  2:1306524/93‑1 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGa         <  2:1291831/93‑1 (MQ=255)

                                                                                tGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTCTGCGATCACCGATCATGGCCCGGATATGGCAGa         >  1:6479652/1‑93 (MQ=255)

                                                                                 gCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGAt        <  2:7546125/93‑1 (MQ=255)

                                                                                  cATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATg       <  1:1941577/93‑1 (MQ=255)

                                                                                  cATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATg       <  1:328485/93‑1 (MQ=255)

                                                                                  cATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATg       <  1:6984067/93‑1 (MQ=255)

                                                                                  cATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATg       <  2:187342/93‑1 (MQ=255)

                                                                                    tataGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATgcg     >  1:4419011/1‑93 (MQ=255)

                                                                                     ataGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATgcgc    >  2:7351586/1‑93 (MQ=255)

                                                                                     ataGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATgcgc    <  2:1124485/93‑1 (MQ=255)

                                                                                     ataGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATgcgc    >  2:6304399/1‑93 (MQ=255)

                                                                                      taGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGcgcc   <  2:2479947/93‑1 (MQ=255)

                                                                                       aGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGcgccc  >  2:2169303/1‑92 (MQ=255)

GCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCACATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCG  >  NC_000913/1098066‑1098245

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

GATK/CNVnator alignment

BRESEQ :: bam2aln output

CCTGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCACATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGCATC  >  NC_000913/1098063‑1098249

CCTGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCG                                                                                               <  SRR4302541.7005044/94‑1 (MQ=60)

CCTGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCG                                                                                               >  SRR4302541.1318489/1‑94 (MQ=60)

CCTGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCG                                                                                               >  SRR4302541.1384144/1‑94 (MQ=60)

 CTGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGC                                                                                              >  SRR4302541.3244482/1‑94 (MQ=60)

  TGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCA                                                                                             >  SRR4302541.587585/1‑94 (MQ=60)

  TGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCA                                                                                             <  SRR4302541.8609289/94‑1 (MQ=60)

     TATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTA                                                                                          >  SRR4302541.2835419/1‑94 (MQ=60)

      ATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAA                                                                                         >  SRR4302541.2605743/1‑94 (MQ=60)

      ATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAA                                                                                         <  SRR4302541.3368193/94‑1 (MQ=60)

       TCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAG                                                                                        <  SRR4302541.774707/94‑1 (MQ=60)

        CCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGT                                                                                       <  SRR4302541.4468726/94‑1 (MQ=60)

        CCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGT                                                                                       <  SRR4302541.5517817/94‑1 (MQ=60)

        CCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCAGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGT                                                                                       >  SRR4302541.8884782/1‑94 (MQ=60)

         CTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTG                                                                                      <  SRR4302541.189249/94‑1 (MQ=60)

         CTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTG                                                                                      <  SRR4302541.4771479/94‑1 (MQ=60)

         CTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTG                                                                                      <  SRR4302541.3629649/94‑1 (MQ=60)

         CTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTG                                                                                      <  SRR4302541.140348/94‑1 (MQ=60)

         CTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTG                                                                                      >  SRR4302541.1443564/1‑94 (MQ=60)

            GGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATT                                                                                   <  SRR4302541.3154186/94‑1 (MQ=60)

             GCGGGAATTTAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTA                                                                                  <  SRR4302541.994642/94‑1 (MQ=60)

             GCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTA                                                                                  <  SRR4302541.4022524/94‑1 (MQ=60)

              CGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTAC                                                                                 >  SRR4302541.7135475/1‑94 (MQ=60)

              CGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTAC                                                                                 <  SRR4302541.6971254/94‑1 (MQ=60)

              CGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTAC                                                                                 <  SRR4302541.3596526/94‑1 (MQ=60)

               GGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACA                                                                                >  SRR4302541.2847864/1‑94 (MQ=60)

                 GAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATT                                                                              >  SRR4302541.6600422/1‑94 (MQ=60)

                 GAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATT                                                                              <  SRR4302541.8246645/94‑1 (MQ=60)

                 GAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATT                                                                              <  SRR4302541.7168017/94‑1 (MQ=60)

                   ATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGC                                                                            <  SRR4302541.5857504/94‑1 (MQ=60)

                   ATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGC                                                                            <  SRR4302541.5857503/94‑1 (MQ=60)

                   ATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGC                                                                            >  SRR4302541.7636713/1‑94 (MQ=60)

                   ATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGC                                                                            <  SRR4302541.7209363/94‑1 (MQ=60)

                   ATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGC                                                                            <  SRR4302541.4976686/94‑1 (MQ=60)

                      GAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCA                                                                         <  SRR4302541.3492169/94‑1 (MQ=60)

                      GAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCA                                                                         <  SRR4302541.4191583/94‑1 (MQ=60)

                       AATACCGGAGAGAATTTTGTATCCCCTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAG                                                                        <  SRR4302541.8620596/94‑1 (MQ=60)

                       AATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAG                                                                        >  SRR4302541.4720618/1‑94 (MQ=60)

                       AATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAG                                                                        >  SRR4302541.1127702/1‑94 (MQ=60)

                        ATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGG                                                                       <  SRR4302541.6159680/94‑1 (MQ=60)

                        ATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGG                                                                       >  SRR4302541.8525677/1‑94 (MQ=60)

                          ACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCC                                                                     <  SRR4302541.6831796/94‑1 (MQ=60)

                           CAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCA                                                                    <  SRR4302541.2542083/94‑1 (MQ=60)

                             GGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAA                                                                  <  SRR4302541.8689487/94‑1 (MQ=60)

                              GAGAGAGTTATTTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAAC                                                                 <  SRR4302541.862801/94‑1 (MQ=60)

                                GAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAA                                                               <  SRR4302541.1820184/94‑1 (MQ=60)

                                  GAGTTATGTATCCCGTCGACCTTCATATGCATACCGTGGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCATGCCAAACAAAA                                                             <  SRR4302541.4343258/94‑1 (MQ=60)

                                   AGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAG                                                            >  SRR4302541.6192585/1‑94 (MQ=60)

                                    GTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGG                                                           >  SRR4302541.158384/1‑94 (MQ=60)

                                     TTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGG                                                          >  SRR4302541.5251730/1‑94 (MQ=60)

                                     TTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACAAATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGG                                                          >  SRR4302541.4358249/1‑94 (MQ=60)

                                      TATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGC                                                         >  SRR4302541.3710183/1‑94 (MQ=60)

                                      TATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGC                                                         <  SRR4302541.6976969/94‑1 (MQ=60)

                                       ATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCA                                                        >  SRR4302541.1042144/1‑94 (MQ=60)

                                       ATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCA                                                        >  SRR4302541.7324191/1‑94 (MQ=60)

                                        TGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCAT                                                       <  SRR4302541.456360/94‑1 (MQ=60)

                                         GTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATT                                                      <  SRR4302541.51025/94‑1 (MQ=60)

                                          TATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTA                                                     >  SRR4302541.1632908/1‑94 (MQ=60)

                                           ATCCCGTCGACCTTCATCTGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAA                                                    <  SRR4302541.7926104/94‑1 (MQ=60)

                                           ATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTCAGTGATTACATTGCCCAGGCCAAACAACAGGGCATTAA                                                    >  SRR4302541.7691822/1‑94 (MQ=60)

                                           ATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAA                                                    >  SRR4302541.302363/1‑94 (MQ=60)

                                            TCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAA                                                   >  SRR4302541.5098668/1‑94 (MQ=60)

                                              CCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACT                                                 <  SRR4302541.7149653/94‑1 (MQ=60)

                                              CCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACT                                                 <  SRR4302541.1724121/94‑1 (MQ=60)

                                               CGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAACAGGGCATTAAACTT                                                >  SRR4302541.1118538/1‑94 (MQ=60)

                                               CGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTT                                                >  SRR4302541.5915687/1‑94 (MQ=60)

                                                GTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTTATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTT                                               >  SRR4302541.624054/1‑94 (MQ=60)

                                                GTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTT                                               >  SRR4302541.6681842/1‑94 (MQ=60)

                                                GTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTT                                               >  SRR4302541.8135425/1‑94 (MQ=60)

                                                GTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTT                                               >  SRR4302541.6681841/1‑94 (MQ=60)

                                                 TCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTT                                              <  SRR4302541.8334844/94‑1 (MQ=60)

                                                   GACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTATATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTG                                            >  SRR4302541.6560306/1‑94 (MQ=60)

                                                   GACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTG                                            >  SRR4302541.4499581/1‑94 (MQ=60)

                                                   GACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTG                                            <  SRR4302541.3866087/94‑1 (MQ=60)

                                                   GACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTG                                            <  SRR4302541.951253/94‑1 (MQ=60)

                                                    ACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGC                                           >  SRR4302541.270009/1‑94 (MQ=60)

                                                     CCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCG                                          >  SRR4302541.6826476/1‑94 (MQ=60)

                                                     CCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCG                                          <  SRR4302541.6584498/94‑1 (MQ=60)

                                                      CTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGT                                         >  SRR4302541.7220616/1‑94 (MQ=60)

                                                      CTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGA                                         >  SRR4302541.3578744/1‑94 (MQ=60)

                                                      CTTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGA                                         >  SRR4302541.5958368/1‑94 (MQ=60)

                                                       TTCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGAT                                        >  SRR4302541.2016521/1‑94 (MQ=60)

                                                        TCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATC                                       <  SRR4302541.1119233/94‑1 (MQ=60)

                                                        TCATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATC                                       <  SRR4302541.5887550/94‑1 (MQ=60)

                                                         CATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCA                                      <  SRR4302541.7006958/94‑1 (MQ=60)

                                                         CATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCA                                      >  SRR4302541.5719076/1‑94 (MQ=60)

                                                          ATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCAC                                     >  SRR4302541.7240302/1‑94 (MQ=60)

                                                          ATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCAC                                     <  SRR4302541.1106696/94‑1 (MQ=60)

                                                          ATATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCAC                                     <  SRR4302541.2957348/94‑1 (MQ=60)

                                                           TATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACC                                    <  SRR4302541.1383600/94‑1 (MQ=60)

                                                           TATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACC                                    <  SRR4302541.2209251/94‑1 (MQ=60)

                                                           TATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACC                                    <  SRR4302541.73618/94‑1 (MQ=60)

                                                           TATGCATACCGTTGCCAGCACACATGCATATAGCGAATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACC                                    >  SRR4302541.5726/1‑94 (MQ=60)

                                                            ATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCG                                   <  SRR4302541.5848304/94‑1 (MQ=60)

                                                            ATGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCG                                   >  SRR4302541.6097291/1‑94 (MQ=60)

                                                             TGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGA                                  >  SRR4302541.8605556/1‑94 (MQ=60)

                                                             TGCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGA                                  <  SRR4302541.8430166/94‑1 (MQ=60)

                                                              GCATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGAT                                 <  SRR4302541.2781296/94‑1 (MQ=60)

                                                               CATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATC                                >  SRR4302541.5707976/1‑94 (MQ=60)

                                                                ATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCA                               >  SRR4302541.6557792/1‑94 (MQ=60)

                                                                ATACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCA                               >  SRR4302541.8016961/1‑94 (MQ=60)

                                                                 TACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCAT                              <  SRR4302541.591367/94‑1 (MQ=60)

                                                                 TACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCAT                              <  SRR4302541.2705053/94‑1 (MQ=60)

                                                                  ACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATG                             <  SRR4302541.7064122/94‑1 (MQ=60)

                                                                  ACCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATG                             >  SRR4302541.5357201/1‑94 (MQ=60)

                                                                   CCGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGG                            >  SRR4302541.8477411/1‑94 (MQ=60)

                                                                    CGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGC                           >  SRR4302541.3230205/1‑94 (MQ=60)

                                                                    CGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGC                           >  SRR4302541.8152202/1‑94 (MQ=60)

                                                                    CGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGC                           >  SRR4302541.3679696/1‑94 (MQ=60)

                                                                    CGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGC                           >  SRR4302541.1692671/1‑94 (MQ=60)

                                                                    CGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGC                           >  SRR4302541.4593294/1‑94 (MQ=60)

                                                                    CGTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGC                           >  SRR4302541.5280750/1‑94 (MQ=60)

                                                                     GTTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCC                          >  SRR4302541.8021333/1‑94 (MQ=60)

                                                                      TTGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCC                         <  SRR4302541.3658494/94‑1 (MQ=60)

                                                                      TTGCCAGCACACATGCATATAGCACATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCC                         <  SRR4302541.8183049/94‑1 (MQ=60)

                                                                       TGCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCG                        <  SRR4302541.3370810/94‑1 (MQ=60)

                                                                        GCCAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGG                       >  SRR4302541.2960300/1‑94 (MQ=60)

                                                                          CAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGAT                     >  SRR4302541.6667544/1‑94 (MQ=60)

                                                                          CAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGAT                     <  SRR4302541.4784146/94‑1 (MQ=60)

                                                                          CAGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGAT                     <  SRR4302541.4831587/94‑1 (MQ=60)

                                                                           AGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATA                    >  SRR4302541.1069368/1‑94 (MQ=60)

                                                                           AGCACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATA                    >  SRR4302541.2590597/1‑94 (MQ=60)

                                                                             CACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATG                  >  SRR4302541.5655060/1‑94 (MQ=60)

                                                                             CACACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATG                  >  SRR4302541.5655059/1‑94 (MQ=60)

                                                                               CACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGA                <  SRR4302541.4872709/94‑1 (MQ=60)

                                                                                ACATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAA               <  SRR4302541.2855433/94‑1 (MQ=60)

                                                                                  ATGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTCTGCGATCACCGATCATGGCCCGGATATGGCAGA             >  SRR4302541.6545688/1‑94 (MQ=60)

                                                                                   TGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTATACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGAT            <  SRR4302541.7118682/94‑1 (MQ=60)

                                                                                   TGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGAT            <  SRR4302541.6853999/94‑1 (MQ=60)

                                                                                   TGCATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGAT            <  SRR4302541.4318607/94‑1 (MQ=60)

                                                                                     CATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGC          >  SRR4302541.1202818/1‑94 (MQ=60)

                                                                                     CATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGC          <  SRR4302541.1960282/94‑1 (MQ=60)

                                                                                     CATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGC          <  SRR4302541.331427/94‑1 (MQ=60)

                                                                                     CATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGC          <  SRR4302541.7058454/94‑1 (MQ=60)

                                                                                      ATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCG         >  SRR4302541.4463353/1‑94 (MQ=60)

                                                                                      ATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCG         >  SRR4302541.2811641/1‑94 (MQ=60)

                                                                                      ATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCG         >  SRR4302541.2627802/1‑94 (MQ=60)

                                                                                      ATATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCG         <  SRR4302541.5605243/94‑1 (MQ=60)

                                                                                        ATAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCC       >  SRR4302541.8647430/1‑94 (MQ=60)

                                                                                         TAGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCG      <  SRR4302541.8198057/94‑1 (MQ=60)

                                                                                          AGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGC     >  SRR4302541.4201295/1‑94 (MQ=60)

                                                                                          AGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGC     >  SRR4302541.220278/1‑94 (MQ=60)

                                                                                          AGCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGC     >  SRR4302541.1221565/1‑94 (MQ=60)

                                                                                           GCGCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGCA    <  SRR4302541.5255237/94‑1 (MQ=60)

                                                                                             GCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGCATC  >  SRR4302541.346450/1‑94 (MQ=60)

                                                                                             GCATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGCATC  >  SRR4302541.7848334/1‑94 (MQ=60)

CCTGCTATCCTTGGCGGGAATTGAATACAGGAGAGAGTTATGTATCCCGTCGACCTTCATATGCATACCGTTGCCAGCACACATGCATATAGCACATTAAGTGATTACATTGCCCAGGCCAAACAAAAGGGCATTAAACTTTTTGCGATCACCGATCATGGCCCGGATATGGAAGATGCGCCGCATC  >  NC_000913/1098063‑1098249

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 0 ≤` `ATCG/ATCG` `< 20 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`