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 647 270.1 21258240 98.4% 20918108 94.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,403,601 T→C intergenic (‑515/+122) b2288 ← / ← lrhA NADH dehydrogenase I chain A/NADH dehydrogenase transcriptional regulator, LysR family

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,403,6010TC98.6% 709.4 / ‑2.2 207intergenic (‑515/+122)b2288/lrhANADH dehydrogenase I chain A/NADH dehydrogenase transcriptional regulator, LysR family
Reads supporting (aligned to +/- strand):  ref base T (2/1);  new base C (72/132);  total (74/133)
Fisher's exact test for biased strand distribution p-value = 2.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 223 total aligned reads displayed.

TATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGTTTTTTACACTAT  >  NC_000913/2403510‑2403693
                                                                                           |                                                                                            
tATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGctt                                                                                            >  1:124975/1‑94 (MQ=255)
tATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGctt                                                                                            >  1:6503013/1‑94 (MQ=255)
 aTTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGcttt                                                                                           <  1:7666055/94‑1 (MQ=255)
  ttttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTg                                                                                          <  1:10144597/94‑1 (MQ=255)
   tttttAACATCATTGTATCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGt                                                                                         <  1:9846913/94‑1 (MQ=255)
   tttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGt                                                                                         >  1:9196494/1‑94 (MQ=255)
   tttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGt                                                                                         <  2:2849642/94‑1 (MQ=255)
   tttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGt                                                                                         <  2:6131713/94‑1 (MQ=255)
    ttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTa                                                                                        <  2:3674868/94‑1 (MQ=255)
    ttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTa                                                                                        <  2:163993/94‑1 (MQ=255)
    ttttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTa                                                                                        <  1:1513458/94‑1 (MQ=255)
      ttAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACg                                                                                      >  1:6176025/1‑94 (MQ=255)
       tAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGt                                                                                     >  2:9172178/1‑94 (MQ=255)
         aCATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTc                                                                                   <  2:10272222/94‑1 (MQ=255)
         aCATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTc                                                                                   <  1:8055689/94‑1 (MQ=255)
         aCATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTc                                                                                   <  1:4971716/94‑1 (MQ=255)
          catcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCt                                                                                  <  2:1966552/94‑1 (MQ=255)
          catcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCt                                                                                  <  1:5298754/94‑1 (MQ=255)
           atcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTg                                                                                 <  2:5316688/94‑1 (MQ=255)
           atcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTg                                                                                 <  2:1047259/94‑1 (MQ=255)
           atcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTg                                                                                 >  1:1650639/1‑94 (MQ=255)
           atcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTg                                                                                 >  2:8276546/1‑94 (MQ=255)
            tcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGc                                                                                <  2:5713001/94‑1 (MQ=255)
            tcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGc                                                                                >  2:6942912/1‑94 (MQ=255)
            tcatTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGc                                                                                <  2:3991033/94‑1 (MQ=255)
             catTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCa                                                                               <  2:4271532/94‑1 (MQ=255)
              atTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCAc                                                                              <  1:371570/94‑1 (MQ=255)
                 gTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGAACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTAt                                                                           <  1:9347172/94‑1 (MQ=255)
                  tAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATg                                                                          <  2:5447082/94‑1 (MQ=255)
                  tAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATg                                                                          <  1:7052886/94‑1 (MQ=255)
                   aGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGc                                                                         >  2:354938/1‑94 (MQ=255)
                   aGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGc                                                                         <  1:9811759/94‑1 (MQ=255)
                   aGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGc                                                                         >  2:1295962/1‑94 (MQ=255)
                    gCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCg                                                                        >  1:1714160/1‑94 (MQ=255)
                    gCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCg                                                                        <  1:9032351/94‑1 (MQ=255)
                     cAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGa                                                                       >  2:1142797/1‑94 (MQ=255)
                     cAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGa                                                                       >  2:8747529/1‑94 (MQ=255)
                     cAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGa                                                                       <  1:199969/94‑1 (MQ=255)
                      aGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGAt                                                                      <  2:7364631/94‑1 (MQ=255)
                          gATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAg                                                                  <  1:4625214/94‑1 (MQ=255)
                           aTTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAgg                                                                 >  2:7426208/1‑94 (MQ=255)
                           aTTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAgg                                                                 >  1:3928966/1‑94 (MQ=255)
                              tttttCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAtt                                                              <  1:8282965/94‑1 (MQ=255)
                              tttttCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAtt                                                              <  2:4384654/94‑1 (MQ=255)
                                tttCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAtttt                                                            <  2:106433/94‑1 (MQ=255)
                                ttgcAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGCTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAtttt                                                            <  1:1804006/91‑1 (MQ=255)
                                  tCAGGTGATTATGTGTGCGTTCGGGACGTGAATCTCTTGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTa                                                          <  2:10430591/94‑1 (MQ=255)
                                  tCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTa                                                          <  1:8687918/94‑1 (MQ=255)
                                   cAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTAc                                                         <  1:6802123/94‑1 (MQ=255)
                                    aGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACt                                                        <  1:8713249/94‑1 (MQ=255)
                                      gCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaa                                                      <  1:7215969/94‑1 (MQ=255)
                                        gATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaa                                                    >  1:3266089/1‑94 (MQ=255)
                                         attattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaa                                                   <  2:7193313/94‑1 (MQ=255)
                                         attattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaa                                                   <  2:6184477/94‑1 (MQ=255)
                                         attattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaa                                                   <  2:868450/94‑1 (MQ=255)
                                          ttattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaaa                                                  <  2:3468637/94‑1 (MQ=255)
                                           tattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaaaa                                                 >  2:7278791/1‑94 (MQ=255)
                                           tattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaaaa                                                 >  2:540453/1‑94 (MQ=255)
                                           tattTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTaaaaaaa                                                 >  2:7678583/1‑94 (MQ=255)
                                             tttGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAg                                               <  1:4295839/94‑1 (MQ=255)
                                             tttGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAg                                               <  1:8473987/94‑1 (MQ=255)
                                                  gCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCt                                          <  2:8072055/94‑1 (MQ=255)
                                                  gCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCt                                          <  2:2591085/94‑1 (MQ=255)
                                                  gCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCt                                          >  1:5347705/1‑94 (MQ=255)
                                                   cGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACTTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTg                                         <  1:3027895/94‑1 (MQ=255)
                                                   cGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTg                                         <  1:6410567/94‑1 (MQ=255)
                                                   cGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTg                                         >  1:5559595/1‑94 (MQ=255)
                                                     gtCGGGACATGAATCTGTGGTAGTGGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTggg                                       <  1:6006345/93‑1 (MQ=255)
                                                      tCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTgggg                                      <  1:3567396/94‑1 (MQ=255)
                                                       cGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGt                                     <  1:9302360/94‑1 (MQ=255)
                                                         ggACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGTGttt                                   >  2:1474528/1‑94 (MQ=255)
                                                         ggACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGttt                                   <  2:4091533/94‑1 (MQ=255)
                                                          gACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTa                                  <  1:7944834/94‑1 (MQ=255)
                                                            cGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTaaa                                <  2:4883843/94‑1 (MQ=255)
                                                            cGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTaaa                                <  2:8919235/94‑1 (MQ=255)
                                                             gTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTaaaa                               >  1:2398940/1‑94 (MQ=255)
                                                              tGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAac                              <  2:6462006/94‑1 (MQ=255)
                                                               gAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAaca                             <  2:5934776/94‑1 (MQ=255)
                                                               gAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAaca                             >  1:129849/1‑94 (MQ=255)
                                                                  tctcTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACAccc                          >  2:8137670/1‑94 (MQ=255)
                                                                    tctGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACAccccc                        <  2:6038392/94‑1 (MQ=255)
                                                                     ctGGTGGTTTAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACGCCCCCa                       <  2:9825300/94‑1 (MQ=255)
                                                                       ggtggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGc                     <  1:8360432/94‑1 (MQ=255)
                                                                       ggtggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGc                     <  2:8187974/94‑1 (MQ=255)
                                                                        gtggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCg                    >  2:2343073/1‑94 (MQ=255)
                                                                        gtggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCg                    <  1:8789202/94‑1 (MQ=255)
                                                                        gtggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGGTTAAAACACCCACcgcg                    >  2:908338/1‑94 (MQ=255)
                                                                        gtggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAATTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCg                    <  1:5423357/94‑1 (MQ=255)
                                                                         tggtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCgg                   <  1:10600364/94‑1 (MQ=255)
                                                                           gtTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCt                 <  1:2263285/94‑1 (MQ=255)
                                                                            ttGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTc                <  2:8346856/94‑1 (MQ=255)
                                                                             tGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCg               >  1:4203495/1‑94 (MQ=255)
                                                                               aaaaaTGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCgct             >  2:2069891/1‑92 (MQ=255)
                                                                                aaaaTGAACAGCTTTGTACGTTCTGCACTATGCGGTGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGGTTTAAACAACCCCAGCGGCTccgtt            >  1:7470512/1‑90 (MQ=255)
                                                                                 aaaTGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGtttt           >  1:513775/1‑94 (MQ=255)
                                                                                   aTGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGtttttt         >  1:2620630/1‑94 (MQ=255)
                                                                                   aTGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGtttttt         <  2:7048604/94‑1 (MQ=255)
                                                                                   aTGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGtttttt         >  2:9663664/1‑94 (MQ=255)
                                                                                    ttaaCAGCTTTTTTCTTTCCGCACTATGCGATGAAGGTTTTTTACTAAAAAAAACCCGATGGGGTTTAAACCCCCCCCAGCGGCTCGTTTTTTa        <  2:7837081/92‑1 (MQ=255)
                                                                                    tGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGTTTTTTa        >  1:1041505/1‑94 (MQ=255)
                                                                                           |                                                                                            
TATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCTCGTTTTTTACACTAT  >  NC_000913/2403510‑2403693

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGTATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTTACACTATT  >  NC_000913/2403508‑2403694
                                                                                             |                                                                                              
CGTATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGC                                                                                                <  SRR4302545.3429916/94‑1 (MQ=60)
 GTATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCT                                                                                               >  SRR4302545.5584326/1‑94 (MQ=60)
  TATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTT                                                                                              >  SRR4302545.6680817/1‑94 (MQ=60)
  TATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTT                                                                                              >  SRR4302545.127797/1‑94 (MQ=60)
   ATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTT                                                                                             <  SRR4302545.7883040/94‑1 (MQ=60)
    TTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTG                                                                                            <  SRR4302545.10444611/94‑1 (MQ=60)
     TTTTTAACATCATTGTATCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGT                                                                                           <  SRR4302545.10139510/94‑1 (MQ=60)
     TTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGT                                                                                           >  SRR4302545.9466081/1‑94 (MQ=60)
     TTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGT                                                                                           <  SRR4302545.5456908/94‑1 (MQ=60)
      TTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTA                                                                                          <  SRR4302545.1548729/94‑1 (MQ=60)
      TTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGAGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTA                                                                                          <  SRR4302545.8353946/94‑1 (MQ=60)
        TTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACG                                                                                        >  SRR4302545.6344113/1‑94 (MQ=60)
          AACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTT                                                                                      <  SRR4302545.6693689/94‑1 (MQ=60)
           ACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTC                                                                                     <  SRR4302545.4212159/94‑1 (MQ=60)
           ACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTC                                                                                     <  SRR4302545.5097645/94‑1 (MQ=60)
           ACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTC                                                                                     <  SRR4302545.8285896/94‑1 (MQ=60)
            CATCATTGTAGCAGTTGATTTTTTTCAGGCGATTAGTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCT                                                                                    >  SRR4302545.5846711/1‑94 (MQ=60)
            CATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCT                                                                                    <  SRR4302545.850402/94‑1 (MQ=60)
            CATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCT                                                                                    >  SRR4302545.5846712/1‑94 (MQ=60)
            CATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCT                                                                                    <  SRR4302545.7808133/94‑1 (MQ=60)
            CATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCT                                                                                    <  SRR4302545.5436028/94‑1 (MQ=60)
             ATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTG                                                                                   >  SRR4302545.1689734/1‑94 (MQ=60)
               CATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCA                                                                                 <  SRR4302545.8712441/94‑1 (MQ=60)
                ATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCAC                                                                                <  SRR4302545.379727/94‑1 (MQ=60)
                ATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCAC                                                                                <  SRR4302545.379726/94‑1 (MQ=60)
                ATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCAC                                                                                <  SRR4302545.7448532/94‑1 (MQ=60)
                   GTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGAACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTAT                                                                             <  SRR4302545.9621304/94‑1 (MQ=60)
                    TAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATG                                                                            <  SRR4302545.7247845/94‑1 (MQ=60)
                    TAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATG                                                                            <  SRR4302545.7247844/94‑1 (MQ=60)
                    GAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATG                                                                            <  SRR4302545.5534564/94‑1 (MQ=60)
                     AGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGC                                                                           <  SRR4302545.10103301/94‑1 (MQ=60)
                      GCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCG                                                                          >  SRR4302545.1754973/1‑94 (MQ=60)
                      GCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCG                                                                          <  SRR4302545.876699/94‑1 (MQ=60)
                      GCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCG                                                                          <  SRR4302545.5167599/94‑1 (MQ=60)
                      GCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCG                                                                          <  SRR4302545.9295578/94‑1 (MQ=60)
                       CAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGA                                                                         <  SRR4302545.204142/94‑1 (MQ=60)
                       CAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGA                                                                         >  SRR4302545.5585299/1‑94 (MQ=60)
                        AGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGAT                                                                        <  SRR4302545.1858012/94‑1 (MQ=60)
                           TGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAA                                                                     <  SRR4302545.9095412/94‑1 (MQ=60)
                            GATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAG                                                                    <  SRR4302545.1848393/94‑1 (MQ=60)
                            GATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAG                                                                    <  SRR4302545.1700125/94‑1 (MQ=60)
                            GATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAG                                                                    <  SRR4302545.4743471/94‑1 (MQ=60)
                             ATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGG                                                                   <  SRR4302545.1287887/94‑1 (MQ=60)
                             ATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGG                                                                   >  SRR4302545.9429666/1‑94 (MQ=60)
                             ATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGG                                                                   >  SRR4302545.4027064/1‑94 (MQ=60)
                              TTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGA                                                                  <  SRR4302545.10124705/94‑1 (MQ=60)
                               TTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAT                                                                 <  SRR4302545.1553776/94‑1 (MQ=60)
                               TTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAT                                                                 <  SRR4302545.1249410/94‑1 (MQ=60)
                                TTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATT                                                                <  SRR4302545.8522904/94‑1 (MQ=60)
                                TTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATT                                                                >  SRR4302545.2244832/1‑94 (MQ=60)
                                TTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATT                                                                >  SRR4302545.9605572/1‑94 (MQ=60)
                                 TTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTT                                                               <  SRR4302545.7907081/94‑1 (MQ=60)
                                 TTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTATGTACGTTCTGCACTATGCGATGAAGGATTT                                                               >  SRR4302545.4238909/1‑94 (MQ=60)
                                  TTGCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGCTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTT                                                              <  SRR4302545.1847638/94‑1 (MQ=60)
                                   TTCAGGCGATTATTTGTGCGTTCGGGACGACAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGATCTGCACTATGCGATGAAGGCTTTTT                                                             >  SRR4302545.1831736/1‑94 (MQ=60)
                                    TCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTA                                                            <  SRR4302545.1366218/94‑1 (MQ=60)
                                    TCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTA                                                            <  SRR4302545.7275158/94‑1 (MQ=60)
                                    TCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTA                                                            >  SRR4302545.9535791/1‑94 (MQ=60)
                                    TCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTA                                                            <  SRR4302545.8939938/94‑1 (MQ=60)
                                     CAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTAT                                                           >  SRR4302545.1370183/1‑94 (MQ=60)
                                     CAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTAC                                                           >  SRR4302545.7850043/1‑94 (MQ=60)
                                     CAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTAC                                                           <  SRR4302545.6989029/94‑1 (MQ=60)
                                      AGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACT                                                          <  SRR4302545.8966058/94‑1 (MQ=60)
                                      AGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACT                                                          >  SRR4302545.3511668/1‑94 (MQ=60)
                                        GCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAA                                                        <  SRR4302545.7417158/94‑1 (MQ=60)
                                         CGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAA                                                       <  SRR4302545.682292/94‑1 (MQ=60)
                                          GATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAA                                                      >  SRR4302545.3346175/1‑94 (MQ=60)
                                           ATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAA                                                     <  SRR4302545.10539080/94‑1 (MQ=60)
                                           ATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAA                                                     <  SRR4302545.3835592/94‑1 (MQ=60)
                                               TTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAG                                                 <  SRR4302545.8718872/94‑1 (MQ=60)
                                               TTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAG                                                 <  SRR4302545.4403936/94‑1 (MQ=60)
                                                  GTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCG                                              <  SRR4302545.8227868/94‑1 (MQ=60)
                                                  GTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCG                                              >  SRR4302545.4687001/1‑94 (MQ=60)
                                                    GCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCT                                            >  SRR4302545.5486619/1‑94 (MQ=60)
                                                    GCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCT                                            <  SRR4302545.8960429/94‑1 (MQ=60)
                                                    GCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCAGCT                                            >  SRR4302545.2438206/1‑94 (MQ=60)
                                                     CGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGACGCTG                                           >  SRR4302545.5407904/1‑94 (MQ=60)
                                                     CGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACTTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTG                                           <  SRR4302545.3102007/94‑1 (MQ=60)
                                                     CGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTG                                           <  SRR4302545.6585867/94‑1 (MQ=60)
                                                     CGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTG                                           >  SRR4302545.5706657/1‑94 (MQ=60)
                                                       GTCGGGACATGAATCTGTGGTAGTGGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGG                                         <  SRR4302545.6168491/94‑1 (MQ=60)
                                                        TCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGG                                        <  SRR4302545.3654561/94‑1 (MQ=60)
                                                        TCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGG                                        <  SRR4302545.510892/94‑1 (MQ=60)
                                                        TCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGG                                        <  SRR4302545.4320910/94‑1 (MQ=60)
                                                         CGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGT                                       <  SRR4302545.9575078/94‑1 (MQ=60)
                                                         CGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGT                                       >  SRR4302545.3298479/1‑94 (MQ=60)
                                                         CGGGACGTGAATCTCTGGGGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAACCGCTGGGGT                                       >  SRR4302545.8633204/1‑94 (MQ=60)
                                                            GACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTA                                    <  SRR4302545.8170576/94‑1 (MQ=60)
                                                            GACGTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTA                                    >  SRR4302545.6203454/1‑94 (MQ=60)
                                                               GTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAA                                 >  SRR4302545.2457131/1‑94 (MQ=60)
                                                               GTGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAA                                 >  SRR4302545.2903080/1‑94 (MQ=60)
                                                                TGAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAAC                                >  SRR4302545.499341/1‑94 (MQ=60)
                                                                 GAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACA                               >  SRR4302545.132760/1‑94 (MQ=60)
                                                                 GAATCTCTGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACA                               >  SRR4302545.2553907/1‑94 (MQ=60)
                                                                        TGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAG                        <  SRR4302545.90742/94‑1 (MQ=60)
                                                                        TGGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAG                        <  SRR4302545.10844376/94‑1 (MQ=60)
                                                                         GGTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGC                       <  SRR4302545.8602596/94‑1 (MQ=60)
                                                                          GTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCG                      <  SRR4302545.9043936/94‑1 (MQ=60)
                                                                          GTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCG                      <  SRR4302545.9929307/94‑1 (MQ=60)
                                                                          GTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCG                      <  SRR4302545.9044278/94‑1 (MQ=60)
                                                                          GTGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGAATTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCG                      <  SRR4302545.5565117/94‑1 (MQ=60)
                                                                           TGGTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGG                     <  SRR4302545.10912492/94‑1 (MQ=60)
                                                                             GTTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT                   <  SRR4302545.2318346/94‑1 (MQ=60)
                                                                              TTGAAATATGAACAGCTTTGTTCGTTCTGCACTATGCAATGAAGGATTTTTACTAAAAAAAGGCCGCTGGGTTTTAAAtccccgccggcgggtc                  <  SRR4302545.2189841/94‑17 (MQ=60)
                                                                              TTGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑C                 <  SRR4302545.9926387/94‑1 (MQ=60)
                                                                               TGAAAAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CG                >  SRR4302545.4308454/1‑94 (MQ=60)
                                                                                  AAAATGAACAGCTTTGTACGTTCTGCACTATGCGGTGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGGTTTAAACAACCCCAGCGGCTCCGTT              >  SRR4302545.7682005/1‑94 (MQ=60)
                                                                                   AAATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTT            >  SRR4302545.525269/1‑94 (MQ=60)
                                                                                     ATGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTT          >  SRR4302545.2683736/1‑94 (MQ=60)
                                                                                      TGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTTA         >  SRR4302545.1064247/1‑94 (MQ=60)
                                                                                      TGAACAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTTA         >  SRR4302545.1826259/1‑94 (MQ=60)
                                                                                        ACCAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAACCACCCCCAGCGGCT‑CGTTTTTTACA       <  SRR4302545.6489881/94‑1 (MQ=60)
                                                                                          CAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACCCCCCCAGCGGCT‑CGTTTTTTACACT     <  SRR4302545.6642148/94‑1 (MQ=60)
                                                                                          CAGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGGTTAAAACACCCCCAGCGGCT‑CGTTTTTTACACT     >  SRR4302545.3116238/1‑94 (MQ=60)
                                                                                           AGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTTACACTA    >  SRR4302545.194905/1‑94 (MQ=60)
                                                                                           AGCTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCACAGCGGCT‑CGTTTTTTACACTA    <  SRR4302545.6947118/94‑1 (MQ=60)
                                                                                             CTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTTACACTATT  >  SRR4302545.7974820/1‑94 (MQ=60)
                                                                                             |                                                                                              
CGTATTTTTTAACATCATTGTAGCAGGTGATTTTTTTCAGGCGATTATTTGTGCGTTCGGGACGTGAATCTCTGGTGGTTGAAAAATGAACAGTTTTGTACGTTCTGCACTATGCGATGAAGGATTTTTACTAAAAAAAAGCCGCTGGGGTTTAAAACACCCCCAGCGGCT‑CGTTTTTTACACTATT  >  NC_000913/2403508‑2403694

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑