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 1061 294.1 15065038 98.6% 14854127 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,093,303 +G coding (187/705 nt) yggS → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,093,2991.G84.3% 632.6 / 112.2 217coding (183/705 nt)yggShypothetical protein
Reads supporting (aligned to +/- strand):  ref base . (15/19);  new base G (85/98);  total (100/117)
Fisher's exact test for biased strand distribution p-value = 8.53e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.01e-01

Only 100 of 249 total aligned reads displayed.

CTGCTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCC  >  NC_000913/3093207‑3093390
                                                                                             |                                                                                           
ctgctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGaa                                                                                              <  2:795544/93‑1 (MQ=255)
ctgctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGaa                                                                                              <  2:4058872/93‑1 (MQ=255)
ctgctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGaa                                                                                              <  1:6594912/93‑1 (MQ=255)
 tgctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑g                                                                                            >  2:2491971/1‑93 (MQ=255)
 tgctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑g                                                                                            <  2:3819780/93‑1 (MQ=255)
  gctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gg                                                                                           >  2:5547261/1‑93 (MQ=255)
   ctTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑ggg                                                                                          <  1:532063/93‑1 (MQ=255)
    ttGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggg                                                                                         <  1:5833369/93‑1 (MQ=255)
    ttGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggg                                                                                         <  1:6956734/93‑1 (MQ=255)
    ttGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggg                                                                                         >  1:2256291/1‑93 (MQ=255)
      gCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggggt                                                                                       <  1:3188658/93‑3 (MQ=255)
      gCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggggt                                                                                       <  1:3261788/93‑3 (MQ=255)
      gCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggggt                                                                                       >  1:4924395/1‑91 (MQ=255)
      gCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggggt                                                                                       <  1:4295555/93‑3 (MQ=255)
        agtcagtAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑gggggtag                                                                                     >  1:3954150/1‑89 (MQ=255)
          tcagtAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGAt                                                                                    >  1:1836110/1‑93 (MQ=255)
             gtAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATaaaa                                                                                >  1:2728353/1‑93 (MQ=255)
              tAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATaaaa                                                                                >  2:1727283/1‑93 (MQ=255)
               aaaacaaaacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAAt                                                                               >  1:1452597/1‑93 (MQ=255)
                aaacaaaacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAAtt                                                                              <  2:3399495/93‑1 (MQ=255)
                  acaaaacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCg                                                                            >  1:4154020/1‑93 (MQ=255)
                  acaaaacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGCAGATAAAATTCg                                                                            >  2:621552/1‑93 (MQ=255)
                   caaaacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGcc                                                                          >  1:6449236/1‑93 (MQ=255)
                    aaaacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCa                                                                         <  2:4442466/93‑1 (MQ=255)
                      aacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCAc                                                                        >  1:4240278/1‑93 (MQ=255)
                      aacCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCAc                                                                        <  1:4738409/93‑1 (MQ=255)
                       acCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACt                                                                       <  1:4860954/93‑1 (MQ=255)
                        ccTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACtt                                                                      >  1:5804609/1‑93 (MQ=255)
                        ccTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACtt                                                                      <  1:11983/93‑1 (MQ=255)
                          tGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTc                                                                    <  2:2302118/93‑1 (MQ=255)
                           gCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCa                                                                   <  2:1324691/93‑1 (MQ=255)
                           gCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCa                                                                   >  2:5604206/1‑93 (MQ=255)
                              aGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGa                                                                >  1:2858287/1‑93 (MQ=255)
                              aGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGa                                                                >  2:142275/1‑93 (MQ=255)
                                 gcCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACt                                                             <  2:5275760/93‑1 (MQ=255)
                                 gcCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTg                                                            <  1:2528207/93‑1 (MQ=255)
                                 gcCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTg                                                            >  1:1314861/1‑93 (MQ=255)
                                   cATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTgg                                                           <  1:452979/93‑1 (MQ=255)
                                   cATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTgg                                                           <  2:2890903/93‑1 (MQ=255)
                                    aTCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTggg                                                          >  1:1282634/1‑93 (MQ=255)
                                    aTCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTggg                                                          >  2:1781849/1‑93 (MQ=255)
                                    aTCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTggg                                                          <  2:4826631/93‑1 (MQ=255)
                                    aTCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTggg                                                          >  2:1232986/1‑93 (MQ=255)
                                      cGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCg                                                        <  2:7229482/93‑1 (MQ=255)
                                       gCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGt                                                       >  1:5667299/1‑93 (MQ=255)
                                          gAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAAc                                                    >  1:4084005/1‑93 (MQ=255)
                                           aaGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACa                                                   >  2:2707193/1‑93 (MQ=255)
                                           aaGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACa                                                   <  1:5683821/93‑1 (MQ=255)
                                           aaGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACa                                                   <  2:3666149/93‑1 (MQ=255)
                                            aGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAg                                                  <  1:5405612/93‑1 (MQ=255)
                                             gCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAgg                                                 >  2:6843580/1‑93 (MQ=255)
                                               cATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGAt                                               <  2:4238892/93‑1 (MQ=255)
                                               cATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGAt                                               <  2:6753521/93‑1 (MQ=255)
                                               cATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGAtt                                              <  1:597280/93‑1 (MQ=255)
                                                 ttGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTa                                             <  1:1538354/93‑1 (MQ=255)
                                                    aTGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGaa                                          <  2:5718299/93‑1 (MQ=255)
                                                     tGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATg                                        <  1:1995933/93‑1 (MQ=255)
                                                       ccGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATgg                                       >  2:5467421/1‑93 (MQ=255)
                                                        cGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGc                                      <  2:3329556/93‑1 (MQ=255)
                                                         gggCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCa                                     >  1:5570732/1‑93 (MQ=255)
                                                         gggCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCa                                     >  2:3094270/1‑93 (MQ=255)
                                                          ggCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCAt                                    >  2:4814319/1‑93 (MQ=255)
                                                           gCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCAtt                                   <  1:2555944/93‑1 (MQ=255)
                                                             aGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCAtttt                                 <  1:1563692/93‑1 (MQ=255)
                                                              gCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTa                                >  2:3226430/1‑93 (MQ=255)
                                                               cGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTAtt                              >  1:4485735/1‑93 (MQ=255)
                                                                gTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTAtt                              >  2:7202543/1‑93 (MQ=255)
                                                                 tCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTg                             >  2:6061956/1‑93 (MQ=255)
                                                                 tCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTg                             >  2:7515942/1‑93 (MQ=255)
                                                                  cAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTgg                            <  1:1623770/93‑1 (MQ=255)
                                                                  cAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGc                           >  1:4641801/1‑93 (MQ=255)
                                                                   aaTTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGc                           >  2:194650/1‑93 (MQ=255)
                                                                   aaTTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGc                           >  1:3407920/1‑93 (MQ=255)
                                                                   aaTTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGc                           <  2:4198428/93‑1 (MQ=255)
                                                                    aTTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGcc                          <  2:2574465/93‑1 (MQ=255)
                                                                         gTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTg                     <  1:5176222/93‑1 (MQ=255)
                                                                         gTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTg                     >  2:4135817/1‑93 (MQ=255)
                                                                         gTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGc                    >  2:1573562/1‑93 (MQ=255)
                                                                          tGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGc                    >  2:2771760/1‑93 (MQ=255)
                                                                            aaaaCTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAg                  <  1:3667797/93‑1 (MQ=255)
                                                                             aaaCTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTc                <  1:2919028/93‑1 (MQ=255)
                                                                              aaCTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTc                <  2:87198/93‑1 (MQ=255)
                                                                              aaCTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTc                >  1:5101482/1‑93 (MQ=255)
                                                                               aCTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCta              >  1:2207561/1‑93 (MQ=255)
                                                                                 tACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCtaa             >  2:2249748/1‑93 (MQ=255)
                                                                                 tACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCtaa             <  1:746317/93‑1 (MQ=255)
                                                                                  aCGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGTATTTTATTGGCCCGTTGCAGTCtaat            >  1:6048424/1‑93 (MQ=255)
                                                                                   cGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCtaata           <  2:2911306/93‑1 (MQ=255)
                                                                                   cGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCtaata           <  2:7391156/93‑1 (MQ=255)
                                                                                    gTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCtaataa          >  2:1019007/1‑93 (MQ=255)
                                                                                     ttCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTGATaaa         >  2:4973228/1‑93 (MQ=255)
                                                                                     ttCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATaaa         <  1:7163966/93‑1 (MQ=255)
                                                                                     ttCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATaaa         >  2:1190277/1‑93 (MQ=255)
                                                                                     ttCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATaaaa        >  2:4629161/1‑93 (MQ=255)
                                                                                      tCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAg       >  1:2704563/1‑93 (MQ=255)
                                                                                       cAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAg       <  1:6685942/93‑1 (MQ=255)
                                                                                       cAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAgc      <  1:3480149/93‑1 (MQ=255)
                                                                                        aGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAgc      >  1:6349871/1‑93 (MQ=255)
                                                                                        aGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAgc      <  1:5524900/93‑1 (MQ=255)
                                                                                        aGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAgc      <  2:2020272/93‑1 (MQ=255)
                                                                                             |                                                                                           
CTGCTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCC  >  NC_000913/3093207‑3093390

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ 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
CTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGTG  >  NC_000913/3093210‑3093395
                                                                                              |                                                                                            
CTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGG                                                                                              <  SRR4302542.1806076/94‑1 (MQ=60)
CTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGG                                                                                              <  SRR4302542.536656/94‑1 (MQ=60)
CTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGG                                                                                              >  SRR4302542.2275690/1‑94 (MQ=60)
 TTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGG                                                                                             <  SRR4302542.5889967/94‑1 (MQ=60)
 TTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGG                                                                                             <  SRR4302542.7025084/94‑1 (MQ=60)
 TTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGG                                                                                             <  SRR4302542.4037663/94‑1 (MQ=60)
  TGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgt                                                                                            >  SRR4302542.4972264/1‑92 (MQ=60)
  TGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgt                                                                                            <  SRR4302542.5520492/94‑3 (MQ=60)
  TGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgt                                                                                            >  SRR4302542.4805577/1‑92 (MQ=60)
   GCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgta                                                                                           <  SRR4302542.3292592/94‑4 (MQ=60)
   GCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgta                                                                                           <  SRR4302542.3218861/94‑4 (MQ=60)
   GCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgta                                                                                           <  SRR4302542.4398606/94‑4 (MQ=60)
   GCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGgta                                                                                           <  SRR4302542.4337805/94‑4 (MQ=60)
   GCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCACGAA‑GGGGgta                                                                                           <  SRR4302542.1883447/94‑4 (MQ=60)
    CAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAG                                                                                           >  SRR4302542.3993187/1‑94 (MQ=60)
    CAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAG                                                                                           <  SRR4302542.5175770/94‑1 (MQ=60)
    CAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAG                                                                                           <  SRR4302542.5877286/94‑1 (MQ=60)
      GTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGAT                                                                                         >  SRR4302542.1852007/1‑94 (MQ=60)
      GTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGAT                                                                                         <  SRR4302542.5687770/94‑1 (MQ=60)
        CAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAA                                                                                       >  SRR4302542.3435740/1‑94 (MQ=60)
        CAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAA                                                                                       >  SRR4302542.5354906/1‑94 (MQ=60)
        CAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAA                                                                                       >  SRR4302542.1494644/1‑94 (MQ=60)
        CAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAA                                                                                       >  SRR4302542.4597010/1‑94 (MQ=60)
         AGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAA                                                                                     >  SRR4302542.2754677/1‑94 (MQ=60)
          GTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAA                                                                                     <  SRR4302542.7528015/94‑1 (MQ=60)
          GTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAA                                                                                     >  SRR4302542.3552720/1‑94 (MQ=60)
           TAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAAT                                                                                    >  SRR4302542.1465132/1‑94 (MQ=60)
            AAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATT                                                                                   >  SRR4302542.430420/1‑94 (MQ=60)
              AACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCG                                                                                 >  SRR4302542.4194915/1‑94 (MQ=60)
              AACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCG                                                                                 <  SRR4302542.4143382/94‑1 (MQ=60)
              AACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCG                                                                                 >  SRR4302542.5934214/1‑94 (MQ=60)
               ACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCC                                                                               >  SRR4302542.6512744/1‑94 (MQ=60)
                CAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCC                                                                               >  SRR4302542.764967/1‑94 (MQ=60)
                  AAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCAC                                                                             >  SRR4302542.4282076/1‑94 (MQ=60)
                  AAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCAC                                                                             <  SRR4302542.5578623/94‑1 (MQ=60)
                  AAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACT                                                                            <  SRR4302542.2719793/94‑1 (MQ=60)
                   AACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACT                                                                            <  SRR4302542.4902471/94‑1 (MQ=60)
                   AACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACT                                                                            >  SRR4302542.3141888/1‑94 (MQ=60)
                   AACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACT                                                                            <  SRR4302542.4784610/94‑1 (MQ=60)
                    ACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTT                                                                           >  SRR4302542.5860942/1‑94 (MQ=60)
                    ACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTT                                                                           <  SRR4302542.4908295/94‑1 (MQ=60)
                     CCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTT                                                                          <  SRR4302542.12084/94‑1 (MQ=60)
                     CCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTT                                                                          >  SRR4302542.6968506/1‑94 (MQ=60)
                     CCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTT                                                                          <  SRR4302542.2034343/94‑1 (MQ=60)
                      CTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTC                                                                         <  SRR4302542.2984108/94‑1 (MQ=60)
                      CTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCA                                                                        <  SRR4302542.5064083/94‑1 (MQ=60)
                       TGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCA                                                                        <  SRR4302542.3445388/94‑1 (MQ=60)
                          GAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGA                                                                     >  SRR4302542.2885751/1‑94 (MQ=60)
                            GCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAAC                                                                   <  SRR4302542.916661/94‑1 (MQ=60)
                             CGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACT                                                                  <  SRR4302542.1576241/94‑1 (MQ=60)
                             CGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTG                                                                 >  SRR4302542.1326194/1‑94 (MQ=60)
                              GCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGG                                                                <  SRR4302542.2552727/94‑1 (MQ=60)
                               CCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGG                                                                <  SRR4302542.5949360/94‑1 (MQ=60)
                               CCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGG                                                               <  SRR4302542.5099844/94‑1 (MQ=60)
                                CATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGG                                                               <  SRR4302542.456890/94‑1 (MQ=60)
                                CATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGG                                                               >  SRR4302542.1293674/1‑94 (MQ=60)
                                 ATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGC                                                              <  SRR4302542.2255952/94‑1 (MQ=60)
                                 ATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGC                                                              >  SRR4302542.2910504/1‑94 (MQ=60)
                                 ATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGC                                                              >  SRR4302542.5315311/1‑94 (MQ=60)
                                   CGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGT                                                            >  SRR4302542.5722347/1‑94 (MQ=60)
                                     CAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAA                                                          >  SRR4302542.2797355/1‑94 (MQ=60)
                                      AGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAAC                                                         >  SRR4302542.5503389/1‑94 (MQ=60)
                                      AGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAAC                                                         >  SRR4302542.3808598/1‑94 (MQ=60)
                                      AGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAAC                                                         >  SRR4302542.4124250/1‑94 (MQ=60)
                                       GAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACA                                                        >  SRR4302542.1382345/1‑94 (MQ=60)
                                       GAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACA                                                        <  SRR4302542.6068128/94‑1 (MQ=60)
                                       GAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACA                                                        >  SRR4302542.1311897/1‑94 (MQ=60)
                                        AAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAG                                                       <  SRR4302542.35661/94‑1 (MQ=60)
                                        AAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAG                                                       <  SRR4302542.5739010/94‑1 (MQ=60)
                                         AGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGG                                                      <  SRR4302542.4197147/94‑1 (MQ=60)
                                         AGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGG                                                      <  SRR4302542.5458123/94‑1 (MQ=60)
                                           CCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGAT                                                    >  SRR4302542.157953/1‑94 (MQ=60)
                                           CCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGAT                                                    <  SRR4302542.5379249/94‑1 (MQ=60)
                                            CATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTA                                                  <  SRR4302542.602430/94‑1 (MQ=60)
                                             ATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTA                                                  >  SRR4302542.7033163/1‑94 (MQ=60)
                                             ATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTA                                                  >  SRR4302542.2577897/1‑94 (MQ=60)
                                             ATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTA                                                  >  SRR4302542.3235853/1‑94 (MQ=60)
                                              TTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAG                                                 <  SRR4302542.1551638/94‑1 (MQ=60)
                                              TTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAG                                                 <  SRR4302542.6587634/94‑1 (MQ=60)
                                               TGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGA                                                >  SRR4302542.1248392/1‑94 (MQ=60)
                                                 ATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAAT                                              <  SRR4302542.4258443/94‑1 (MQ=60)
                                                  TGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGG                                            <  SRR4302542.2013150/94‑1 (MQ=60)
                                                   GCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGG                                            <  SRR4302542.6262183/94‑1 (MQ=60)
                                                   GCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGC                                           <  SRR4302542.6612755/94‑1 (MQ=60)
                                                     CGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCA                                          >  SRR4302542.5624863/1‑94 (MQ=60)
                                                     CGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCA                                          <  SRR4302542.1403035/94‑1 (MQ=60)
                                                        GCAGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTT                                       <  SRR4302542.2580725/94‑1 (MQ=60)
                                                          AGCGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTA                                     <  SRR4302542.1577204/94‑1 (MQ=60)
                                                           GCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATT                                   >  SRR4302542.4529762/1‑94 (MQ=60)
                                                            CGTCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATT                                   <  SRR4302542.638552/94‑1 (MQ=60)
                                                            CGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTG                                  >  SRR4302542.4614043/1‑94 (MQ=60)
                                                              TCAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGG                                 <  SRR4302542.6983068/94‑1 (MQ=60)
                                                              TCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGC                                >  SRR4302542.4687152/1‑94 (MQ=60)
                                                               CAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGC                                <  SRR4302542.1637792/94‑1 (MQ=60)
                                                               CAATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGC                                >  SRR4302542.3439865/1‑94 (MQ=60)
                                                                AATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCC                               >  SRR4302542.208340/1‑94 (MQ=60)
                                                                 ATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCC                              >  SRR4302542.4557921/1‑94 (MQ=60)
                                                                 ATTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCC                              >  SRR4302542.6716801/1‑94 (MQ=60)
                                                                  TTTGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCG                             <  SRR4302542.4477105/94‑1 (MQ=60)
                                                                    TGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTT                           <  SRR4302542.4736395/94‑1 (MQ=60)
                                                                    TGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTT                           <  SRR4302542.5786724/94‑1 (MQ=60)
                                                                    TGGTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTT                           <  SRR4302542.5752761/94‑1 (MQ=60)
                                                                      GTGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGC                         <  SRR4302542.5226522/94‑1 (MQ=60)
                                                                       TGAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCA                        >  SRR4302542.1560123/1‑94 (MQ=60)
                                                                        GAAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAG                       <  SRR4302542.2306680/94‑1 (MQ=60)
                                                                         AAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGT                      <  SRR4302542.64122/94‑1 (MQ=60)
                                                                         AAAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGT                      <  SRR4302542.3702828/94‑1 (MQ=60)
                                                                         AAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTC                     <  SRR4302542.3312903/94‑1 (MQ=60)
                                                                         AAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTC                     >  SRR4302542.4946759/1‑94 (MQ=60)
                                                                          AAACTACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTC                     >  SRR4302542.5151047/1‑94 (MQ=60)
                                                                          AAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCT                    <  SRR4302542.2947013/94‑1 (MQ=60)
                                                                           AACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTA                   >  SRR4302542.2226555/1‑94 (MQ=60)
                                                                             CTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAAT                 <  SRR4302542.5731557/94‑1 (MQ=60)
                                                                              TACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGTATTTTATTGGCCCGTTGCAGTCTAAT                 >  SRR4302542.6106967/1‑94 (MQ=60)
                                                                              TACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAAT                 <  SRR4302542.752781/94‑1 (MQ=60)
                                                                               ACGTTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATA                >  SRR4302542.1697374/1‑94 (MQ=60)
                                                                                  TTCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAA             <  SRR4302542.7234243/94‑1 (MQ=60)
                                                                                  TTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAG            >  SRR4302542.2730653/1‑94 (MQ=60)
                                                                                   TCAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAG            <  SRR4302542.5698153/94‑1 (MQ=60)
                                                                                    CAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGC           <  SRR4302542.6751796/94‑1 (MQ=60)
                                                                                    CAGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGC           >  SRR4302542.6412426/1‑94 (MQ=60)
                                                                                    CAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCC          <  SRR4302542.3512718/94‑1 (MQ=60)
                                                                                     AGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCC          <  SRR4302542.2592808/94‑1 (MQ=60)
                                                                                     AGGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCC          <  SRR4302542.5578603/94‑1 (MQ=60)
                                                                                      GGAAGGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCG         <  SRR4302542.735998/94‑1 (MQ=60)
                                                                                        aagGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCC       <  SRR4302542.599908/91‑1 (MQ=60)
                                                                                        aagGGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCC       <  SRR4302542.3003519/91‑1 (MQ=60)
                                                                                        AG‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCT      <  SRR4302542.5928019/94‑1 (MQ=60)
                                                                                        AG‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCT      <  SRR4302542.4594543/94‑1 (MQ=60)
                                                                                        AA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCT      <  SRR4302542.2732432/94‑1 (MQ=60)
                                                                                         G‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTG     <  SRR4302542.2244760/94‑1 (MQ=60)
                                                                                         G‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTG     <  SRR4302542.4140573/94‑1 (MQ=60)
                                                                                           GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGG    <  SRR4302542.5461334/94‑1 (MQ=60)
                                                                                           GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGG    <  SRR4302542.5254804/94‑1 (MQ=60)
                                                                                            GGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGT   >  SRR4302542.7437397/1‑94 (MQ=60)
                                                                                            GGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGT   >  SRR4302542.4705341/1‑94 (MQ=60)
                                                                                            GGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGT   >  SRR4302542.1630685/1‑94 (MQ=60)
                                                                                             GGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGTG  <  SRR4302542.5640942/94‑1 (MQ=60)
                                                                                             GGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGTG  <  SRR4302542.3494829/94‑1 (MQ=60)
                                                                                             GGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGTG  <  SRR4302542.3494832/94‑1 (MQ=60)
                                                                                             GGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGTG  <  SRR4302542.1285055/94‑1 (MQ=60)
                                                                                              |                                                                                            
CTTGCAGTCAGTAAAACAAAACCTGCGAGCGCCATCGCAGAAGCCATTGATGCCGGGCAGCGTCAATTTGGTGAAAACTACGTTCAGGAA‑GGGGTAGATAAAATTCGCCACTTTCAGGAACTGGGCGTAACAGGATTAGAATGGCATTTTATTGGCCCGTTGCAGTCTAATAAAAGCCGCCTGGTG  >  NC_000913/3093210‑3093395

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑