Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 1873 183.1 9376148 98.2% 9207377 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,566,875 A→G R29R (CGT→CGC)  glgC ← glucose‑1‑phosphate adenylyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,566,8750AG100.0% 453.4 / NA 149R29R (CGT→CGC) glgCglucose‑1‑phosphate adenylyltransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (105/44);  total (105/44)

Only 100 of 236 total aligned reads displayed.

AGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGAC  >  NC_000913/3566785‑3566964
                                                                                          |                                                                                         
 gACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGt                                                                                        >  1:2805069/1‑93 (MQ=255)
 gACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGt                                                                                        >  2:3421126/1‑93 (MQ=255)
  aCAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGtc                                                                                       >  2:2416133/1‑93 (MQ=255)
  aCAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATACTTCAGGCTGGGACCGCGtc                                                                                       >  2:4412468/1‑93 (MQ=255)
   cAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGtcc                                                                                      <  2:4196913/93‑1 (MQ=255)
     gcgcAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGtcctc                                                                                    <  1:2956708/93‑1 (MQ=255)
       gcAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTccc                                                                                  >  1:4488230/1‑93 (MQ=255)
       gcAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTccc                                                                                  <  2:704006/93‑1 (MQ=255)
        cAAAGTCGCTAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCg                                                                                 >  1:3471716/1‑93 (MQ=255)
        cAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCg                                                                                 >  2:1223264/1‑93 (MQ=255)
           aGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCa                                                                              <  1:4536584/93‑1 (MQ=255)
            gTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAg                                                                             >  1:361562/1‑93 (MQ=255)
            gTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAg                                                                             >  1:2828358/1‑93 (MQ=255)
              cGATAATGCGGAACTTCCCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTa                                                                           <  1:3281447/93‑1 (MQ=255)
              cGATAATGCGGAACTTCCCGCCAAATTGTCGGGCCGGTTTTGCTCGCTAATTGGTGAAACCCTCCAGGCGGTTACCGCGTCCTCCCGCCAGTa                                                                           <  2:1181377/93‑1 (MQ=255)
              cGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGTTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTa                                                                           <  2:1749898/93‑1 (MQ=255)
                 tAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCa                                                                        >  1:1180715/1‑93 (MQ=255)
                 aaaTGCGGAACTTCCCGCCGAAGTGTCCGGCCGGTTTTGCTCGCTTATTGGTTAAACCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCa                                                                        <  2:3392992/92‑1 (MQ=255)
                  aaTGGGGAACTTACCGCCGAAGTGTACGGCCGTTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAg                                                                       <  1:3051249/93‑1 (MQ=255)
                   aTGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAgg                                                                      <  1:607657/93‑1 (MQ=255)
                   aTGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAgg                                                                      >  2:4277304/1‑93 (MQ=255)
                   aTGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAgg                                                                      >  2:3622056/1‑93 (MQ=255)
                    tGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAggg                                                                     <  1:809001/93‑1 (MQ=255)
                     gCGGAACTTACCGCCGAAGTGTACGGCCGGGTTTGCTCGCTTATTGGTTACATCCTTCAGGCGGGTACCGCGTGCTCCCGCCCGTATCAGGGc                                                                    >  2:2706849/1‑93 (MQ=255)
                      cGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCa                                                                   >  1:716990/1‑93 (MQ=255)
                       ggAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACAGCGTCCTCCCGCCAGTATCAGGGCaa                                                                  >  1:2364870/1‑93 (MQ=255)
                        gaccTTCCCGCCGAGGTGTACGGCTGGTTTTGCGCGCTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAAc                                                                 <  1:3525513/90‑1 (MQ=255)
                        gAACTTCCCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAAc                                                                 <  1:2104408/93‑1 (MQ=255)
                        gAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAAc                                                                 >  1:1062508/1‑93 (MQ=255)
                          aCTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAg                                                               >  2:2841983/1‑93 (MQ=255)
                          aCTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAg                                                               >  1:2205830/1‑93 (MQ=255)
                           cTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGa                                                              <  2:1613299/93‑1 (MQ=255)
                            ttACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGAt                                                             <  1:1796351/93‑1 (MQ=255)
                             tACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGAtt                                                            >  2:1536650/1‑93 (MQ=255)
                             tACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGAtt                                                            >  1:4034563/1‑93 (MQ=255)
                              aCCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGAttt                                                           >  1:2120688/1‑93 (MQ=255)
                               cccccgAAGTGTCCGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTc                                                          <  1:3373030/90‑1 (MQ=255)
                                 gccgAATTGTACGGCCGGTTTTGCTCGTTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCaa                                                        <  2:2136327/93‑1 (MQ=255)
                                 gccgAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCaa                                                        >  1:2057481/1‑93 (MQ=255)
                                   cgAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATg                                                      >  2:721781/1‑93 (MQ=255)
                                   cgAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATg                                                      <  1:4289201/93‑1 (MQ=255)
                                    gAAGTGTACGGCCGGTTTTGCTCGCTTTTTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATgg                                                     >  2:2234374/1‑93 (MQ=255)
                                    gAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATgg                                                     >  2:4665276/1‑93 (MQ=255)
                                         gtACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCt                                                >  1:1262921/1‑93 (MQ=255)
                                         gtACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCt                                                <  1:1441610/93‑1 (MQ=255)
                                         gtACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCt                                                >  1:2295494/1‑93 (MQ=255)
                                         gtACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCt                                                >  2:1710960/1‑93 (MQ=255)
                                          tACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTg                                               >  1:1202880/1‑93 (MQ=255)
                                          tACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTg                                               >  2:3763596/1‑93 (MQ=255)
                                          tACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTg                                               >  1:467550/1‑93 (MQ=255)
                                           aCGGCCGTTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTgg                                              <  2:2604004/93‑1 (MQ=255)
                                             ggCCGGGTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGGCCTCCCGCCAGTATCAGGGCGACAGATTTCAATGGCAGCTgggg                                            >  2:1766971/1‑91 (MQ=255)
                                              gCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGgcgc                                           >  1:1954782/1‑93 (MQ=255)
                                                 ggTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGcc                                        <  2:3073727/93‑1 (MQ=255)
                                                  gTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCa                                       >  1:3812650/1‑93 (MQ=255)
                                                  gTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCa                                       >  2:1439344/1‑93 (MQ=255)
                                                    tttGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAAc                                     >  1:2740492/1‑93 (MQ=255)
                                                      tGCTCTCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAt                                   <  1:3387294/93‑1 (MQ=255)
                                                      tGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAt                                   >  2:239615/1‑93 (MQ=255)
                                                      tGCTCGCTTATTGGTAAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAt                                   <  1:3843743/93‑1 (MQ=255)
                                                       gCTCTCTTATTGTTTAAATCCTACGGGCGAGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAtt                                  <  2:1075970/93‑1 (MQ=255)
                                                         tCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTaa                                >  1:3798437/1‑93 (MQ=255)
                                                         tCGCTAATTGGTAAAATCCTTCAGGCGTGCACCGCGTCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTaa                                <  1:2541772/93‑1 (MQ=255)
                                                          ctcTTTTTGTTTAAATCCTTCAGGCGGGTACCCCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAg                               <  1:912884/91‑1 (MQ=255)
                                                          cGCTTTTTGGTAAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAg                               <  2:3485659/93‑1 (MQ=255)
                                                           tcTTATTGTTAAAATCCTTCAGGCGGTTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGt                              <  2:2496821/92‑1 (MQ=255)
                                                            cTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTg                             >  2:4119606/1‑93 (MQ=255)
                                                            cTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCCCCAACATCAAGTg                             >  2:2450225/1‑93 (MQ=255)
                                                              ttttGATTAAATCCTTCGGGCGGTCCCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGAt                           <  1:322305/91‑1 (MQ=255)
                                                              tATTGTTTAAATCCTTCAGGGGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAATAAGTGAt                           <  2:4571278/93‑1 (MQ=255)
                                                              tATTGTTTAAATCCTCCGGGCGGGTCCCGCGCCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGAt                           <  1:1628866/93‑1 (MQ=255)
                                                              tATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGAt                           >  2:3003321/1‑93 (MQ=255)
                                                               tttGGTTAAATCCTTCGGGGGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATc                          <  1:3769727/92‑1 (MQ=255)
                                                               atgggTAAAATCTTTCAGGCGGCTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATc                          <  1:1315888/90‑1 (MQ=255)
                                                               aTTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATc                          >  1:2422930/1‑93 (MQ=255)
                                                                 tGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGGGATCGt                        >  2:2327825/1‑93 (MQ=255)
                                                                  ggTTAAATCCTTCAGGCGGGTACCGCCCCCTACCGCCAGTATCAGGGCAACAGCTTTCAATGGCAGCTGGCGCGCCAACCCTTAGTGATCgat                       >  2:1901373/1‑91 (MQ=255)
                                                                   gTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGttc                      <  2:3377248/93‑1 (MQ=255)
                                                                    ttAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGttct                     >  1:4072837/1‑93 (MQ=255)
                                                                    taaaaCCCTGCAGGCGGTTCCCCCGCCCGCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGttct                     <  2:2597010/91‑1 (MQ=255)
                                                                     tAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGttctt                    >  1:98597/1‑93 (MQ=255)
                                                                      aaaTCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGttcttc                   >  2:2647180/1‑93 (MQ=255)
                                                                      aaaCCCTCCAGGCGGGTGCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGttcttc                   <  1:420820/93‑1 (MQ=255)
                                                                       aaTCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATCGCAGCTGTCGCGCCAACATTAAGTGATCGTtcttct                  >  1:4509020/1‑93 (MQ=255)
                                                                            ctCAGGCGGTTCCCCCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTaaa             <  2:1940033/92‑1 (MQ=255)
                                                                             tCAGGCGGGTCCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAAc            <  1:691844/93‑1 (MQ=255)
                                                                              cAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAATAAGTGATCGGTCTTCTCTAAACt           >  1:3938251/1‑93 (MQ=255)
                                                                               aGGGGGGTGCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTa          <  2:4060255/93‑1 (MQ=255)
                                                                               aGGCGGGTACCGCGCCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTa          <  2:1357036/93‑1 (MQ=255)
                                                                                ggCGGGTACCGCGTCCTCCCGTCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTaa         >  2:3931282/1‑93 (MQ=255)
                                                                                ggCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTaa         >  2:3302456/1‑93 (MQ=255)
                                                                                 gCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAAc        <  2:2868285/93‑1 (MQ=255)
                                                                                 gCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAAc        >  2:147279/1‑93 (MQ=255)
                                                                                   gggTCCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCa      <  2:1689812/93‑1 (MQ=255)
                                                                                   gggTCCCGCGCCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCa      <  2:3130595/93‑1 (MQ=255)
                                                                                   gggTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCa      <  1:540445/93‑1 (MQ=255)
                                                                                    ggTCCCCCGCCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCAt     <  2:3588435/93‑1 (MQ=255)
                                                                                      tACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGa   >  2:424121/1‑93 (MQ=255)
                                                                                       aCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGAc  >  1:2936306/1‑93 (MQ=255)
                                                                                       aCCGCGCCCACCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGAc  <  2:4054707/93‑1 (MQ=255)
                                                                                          |                                                                                         
AGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGAC  >  NC_000913/3566785‑3566964

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TTAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAA  >  NC_000913/3566783‑3566967
                                                                                            |                                                                                            
TTAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGC                                                                                             <  SRR4302535.727901/94‑1 (MQ=60)
 TAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCG                                                                                            >  SRR4302535.2849387/1‑94 (MQ=60)
 TAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCG                                                                                            >  SRR4302535.3393928/1‑94 (MQ=60)
  AGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGT                                                                                           >  SRR4302535.2825014/1‑94 (MQ=60)
       GCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCC                                                                                      <  SRR4302535.2977475/94‑1 (MQ=60)
        CGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCC                                                                                     >  SRR4302535.2219449/1‑94 (MQ=60)
        CGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCC                                                                                     >  SRR4302535.4519041/1‑94 (MQ=60)
        CGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCC                                                                                     <  SRR4302535.654247/94‑1 (MQ=60)
        CGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCC                                                                                     >  SRR4302535.3803788/1‑94 (MQ=60)
         GCAAAGTCGCTAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCG                                                                                    >  SRR4302535.3495839/1‑94 (MQ=60)
           AAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCC                                                                                  >  SRR4302535.2388167/1‑94 (MQ=60)
             AGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAG                                                                                >  SRR4302535.364058/1‑94 (MQ=60)
             AGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAG                                                                                >  SRR4302535.4471063/1‑94 (MQ=60)
             AGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAG                                                                                <  SRR4302535.4567621/94‑1 (MQ=60)
             AGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAG                                                                                >  SRR4302535.2848431/1‑94 (MQ=60)
              GTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGT                                                                               >  SRR4302535.708059/1‑94 (MQ=60)
                CGATAATGCGGAACTTCCCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTAT                                                                             <  SRR4302535.3304237/94‑1 (MQ=60)
                  ATAATGCGGAACTTCCCGCCGAAGTGTACGGCGGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCA                                                                           <  SRR4302535.2212911/94‑1 (MQ=60)
                  ATAATGCGGAACTTCCCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCA                                                                           <  SRR4302535.465750/94‑1 (MQ=60)
                  ATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCA                                                                           >  SRR4302535.582448/1‑94 (MQ=60)
                  ATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCA                                                                           >  SRR4302535.1189145/1‑94 (MQ=60)
                   TAATGCGTAACTTCCCGCGGAAGTCTACGGCCGTTTTTGCTCCCTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAG                                                                          <  SRR4302535.1251011/94‑1 (MQ=60)
                   TAATGCGGAACTTACCGCCGAGGTGTCGGGCCGGTTTTGCTCGCTTATTGGTTAAACCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAG                                                                          <  SRR4302535.2965713/94‑1 (MQ=60)
                   TAATGCGGAACTTACCGCCGAAGTGTACGGCCGTTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAG                                                                          <  SRR4302535.4093168/94‑1 (MQ=60)
                   TAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAG                                                                          >  SRR4302535.1947785/1‑94 (MQ=60)
                    AATGGGGAACTTACCGCCGAAGTGTACGGCCGTTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGG                                                                         <  SRR4302535.3072623/94‑1 (MQ=60)
                    AATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGG                                                                         >  SRR4302535.2133654/1‑94 (MQ=60)
                    AATGCGGAACTGACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGGCCCGCGTCCTCCCGCCAGTATCAGG                                                                         <  SRR4302535.342390/94‑1 (MQ=60)
                     ATGCTGAACTTACCGCTGACGTGTACGGCCGGTTTTGCTCACTTATTGGTTAATTCTTTCAGGCGGGTACCGCGTCTTCCCGCCAGTATCAGGG                                                                        <  SRR4302535.1627279/94‑1 (MQ=60)
                     ATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGG                                                                        <  SRR4302535.611898/94‑1 (MQ=60)
                     ATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGG                                                                        >  SRR4302535.2677818/1‑94 (MQ=60)
                      TGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGC                                                                       <  SRR4302535.814662/94‑1 (MQ=60)
                       GCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCA                                                                      >  SRR4302535.3869258/1‑94 (MQ=60)
                       GCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCA                                                                      >  SRR4302535.722026/1‑94 (MQ=60)
                        CGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACAGCGTCCTCCCGCCAGTATCAGGGCAA                                                                     >  SRR4302535.2381850/1‑94 (MQ=60)
                         GGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAAC                                                                    >  SRR4302535.1070070/1‑94 (MQ=60)
                          GACCTTCCCGCCGAGGTGTACGGCTGGTTTTGCGCGCTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACA                                                                   <  SRR4302535.3549994/94‑1 (MQ=60)
                          GAACTTCCCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACA                                                                   <  SRR4302535.2119583/94‑1 (MQ=60)
                           AACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAG                                                                  >  SRR4302535.2221540/1‑94 (MQ=60)
                            ACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGA                                                                 >  SRR4302535.3600255/1‑94 (MQ=60)
                             cttcctgcaGAAGTGTACGGCGGGTTTTGCTGTCTTATTGGTTAATCCCTTCAGGCGGATCCCCCGTCCTCCCGCCAGTATCAGGGCAACAGAT                                                                <  SRR4302535.2815897/85‑1 (MQ=48)
                             CTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGAT                                                                >  SRR4302535.1603389/1‑94 (MQ=60)
                              TTCCCGCCGAAGTGTACGGCCGTTTTTGCGCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATT                                                               <  SRR4302535.4169262/94‑1 (MQ=60)
                              TTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATT                                                               <  SRR4302535.1809338/94‑1 (MQ=60)
                              TTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATT                                                               >  SRR4302535.4062183/1‑94 (MQ=60)
                              CTACCGCCGAAGGTTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATT                                                               <  SRR4302535.2051257/94‑1 (MQ=60)
                               TACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTT                                                              >  SRR4302535.2135983/1‑94 (MQ=60)
                               TACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTT                                                              >  SRR4302535.2872090/1‑94 (MQ=60)
                                 CCCCCGAAGTGTCCGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCA                                                            <  SRR4302535.3396493/94‑1 (MQ=60)
                                  CGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAA                                                           >  SRR4302535.1219775/1‑94 (MQ=60)
                                  CGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAA                                                           >  SRR4302535.2072304/1‑94 (MQ=60)
                                     CGAGGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCGGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGG                                                        <  SRR4302535.284710/94‑1 (MQ=60)
                                     CGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGG                                                        >  SRR4302535.2617986/1‑94 (MQ=60)
                                     CGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGG                                                        <  SRR4302535.4318538/94‑1 (MQ=60)
                                       AAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCA                                                      >  SRR4302535.1125286/1‑94 (MQ=60)
                                       AAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCA                                                      >  SRR4302535.1232320/1‑94 (MQ=60)
                                        AGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAG                                                     <  SRR4302535.644483/94‑1 (MQ=60)
                                          TGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCT                                                   >  SRR4302535.2311916/1‑94 (MQ=60)
                                          TGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCT                                                   >  SRR4302535.1271958/1‑94 (MQ=60)
                                           GTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTG                                                  >  SRR4302535.470822/1‑94 (MQ=60)
                                           GTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTG                                                  <  SRR4302535.1451922/94‑1 (MQ=60)
                                           GTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTG                                                  >  SRR4302535.1211515/1‑94 (MQ=60)
                                            TACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGG                                                 <  SRR4302535.3642001/94‑1 (MQ=60)
                                              CGGCCGGTTTTGCTCGTTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCG                                               <  SRR4302535.88897/94‑1 (MQ=60)
                                               GGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGC                                              >  SRR4302535.1968852/1‑94 (MQ=60)
                                                  ggtTTTTGCTCGTTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCC                                           <  SRR4302535.120734/91‑1 (MQ=60)
                                                   GTTTTTGCTCGTTTATTGGTTAAACCCTTGAGGCGGGTCCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCA                                          <  SRR4302535.3465377/94‑1 (MQ=60)
                                                   GGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCA                                          >  SRR4302535.3838962/1‑94 (MQ=60)
                                                    GTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAA                                         >  SRR4302535.2521199/1‑94 (MQ=60)
                                                     TTTTGCTCGTTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAAC                                        <  SRR4302535.3830170/94‑1 (MQ=60)
                                                     TTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAAC                                        >  SRR4302535.2760026/1‑94 (MQ=60)
                                                      TTTTCTCGTTTATTGGTAAAATCCTTCGGGCGGGTCCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACA                                       <  SRR4302535.2312288/94‑1 (MQ=60)
                                                        TGCTCTCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATT                                     <  SRR4302535.3410863/94‑1 (MQ=60)
                                                        TGCTCGCTTATTGGTAAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATT                                     <  SRR4302535.3870218/94‑1 (MQ=60)
                                                         cctctCTTATTGGTTAAATCCTTCGGGCGGGTACCGCTGCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTA                                    <  SRR4302535.145763/89‑1 (MQ=60)
                                                         cccctcttattgttaaaacCCTTCAGGCGGGTCCCGCCTCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTA                                    <  SRR4302535.4131076/75‑1 (MQ=60)
                                                         GCTCGTTTTTTGTTTAAATCCTTCAGGCGGATACCGCGTCTTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTA                                    <  SRR4302535.3923622/94‑1 (MQ=60)
                                                          CTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAA                                   >  SRR4302535.3824623/1‑94 (MQ=60)
                                                           TCGCTAATTGGTAAAATCCTTCAGGCGTGCACCGCGTCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAG                                  <  SRR4302535.2560079/94‑1 (MQ=60)
                                                            ctctttttgtTTAAATCCTTCAGGCGGGTACCCCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGT                                 <  SRR4302535.919372/84‑1 (MQ=60)
                                                            CGTTTATTGGTTAAACCCTTCCGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGT                                 <  SRR4302535.2322888/94‑1 (MQ=60)
                                                            CGCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGT                                 >  SRR4302535.4123493/1‑94 (MQ=60)
                                                            CGCTTATTGGTTAAATCCTTCAGGCGGATCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGT                                 <  SRR4302535.4544902/94‑1 (MQ=60)
                                                            CGCTTATTGGTTAAATCCTCCAGGCGCGTACCCCGTCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGT                                 <  SRR4302535.759779/94‑1 (MQ=60)
                                                             GCTTATTGGTTAAATCCTTCAGGCGGTTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTG                                <  SRR4302535.2229876/94‑1 (MQ=60)
                                                             GCTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTG                                >  SRR4302535.3255466/1‑94 (MQ=60)
                                                              CTTATTGGTTAAATCCTTCAGGCGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGA                               <  SRR4302535.3014668/94‑1 (MQ=60)
                                                              CTTATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGA                               >  SRR4302535.4243455/1‑94 (MQ=60)
                                                                TATTGTTTAAATCCTCCGGGCGGGTCCCGCGCCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATC                             <  SRR4302535.1640629/94‑1 (MQ=60)
                                                                TATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATC                             >  SRR4302535.2440385/1‑94 (MQ=60)
                                                                 TTTGGTTAAATCCTTCGGGGGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCG                            <  SRR4302535.3795744/94‑1 (MQ=60)
                                                                 ATTGGTTAAATCCTTCAGGCGGGTACCGCGTCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCG                            <  SRR4302535.3183259/94‑1 (MQ=60)
                                                                 ATGGGTAAAATCTTTCAGGCGGCTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCG                            <  SRR4302535.1325286/94‑1 (MQ=60)
                                                                     GTTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCT                        >  SRR4302535.4100708/1‑94 (MQ=60)
                                                                     GTTAAACCCTTCAGGGGGGTCCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCT                        <  SRR4302535.4523588/94‑1 (MQ=60)
                                                                      TTAAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTT                       >  SRR4302535.99294/1‑94 (MQ=60)
                                                                        AAATCCTTCAGGCGGTTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCT                     <  SRR4302535.2094892/94‑1 (MQ=60)
                                                                        AAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCT                     >  SRR4302535.1673501/1‑94 (MQ=60)
                                                                        AAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCT                     <  SRR4302535.959774/94‑1 (MQ=60)
                                                                        AAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCT                     >  SRR4302535.3528153/1‑94 (MQ=60)
                                                                        AAATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATCGCAGCTGTCGCGCCAACATTAAGTGATCGTTCTTCT                     >  SRR4302535.4539960/1‑94 (MQ=60)
                                                                        AAATCCTTCAGGCGGGTACCGCGCCCTCCCGCCAGTATCAGGGCAACAGACTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCT                     <  SRR4302535.3325959/94‑1 (MQ=60)
                                                                        AAACCCTCCAGGCGGGTGCCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCT                     <  SRR4302535.423759/94‑1 (MQ=60)
                                                                         AATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGTCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTC                    >  SRR4302535.3810443/1‑94 (MQ=60)
                                                                         AATCCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTC                    >  SRR4302535.3547240/1‑94 (MQ=60)
                                                                            CCTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAATGATCGTTCTTCTCTTA                 >  SRR4302535.502917/1‑94 (MQ=60)
                                                                             CTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGGCGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTTAA                >  SRR4302535.834688/1‑94 (MQ=60)
                                                                             CTTCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAA                >  SRR4302535.4054010/1‑94 (MQ=60)
                                                                               TCAGGCGGGTCCCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACT              <  SRR4302535.696692/94‑1 (MQ=60)
                                                                               TCAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACAATAAGTGATCGGTCTTCTCTAAACT              >  SRR4302535.3965127/1‑94 (MQ=60)
                                                                                CAGGCGGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTA             >  SRR4302535.139787/1‑94 (MQ=60)
                                                                                  GGCGGGTACCGCGTCCCCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAAC           <  SRR4302535.3152538/94‑1 (MQ=60)
                                                                                     GGGTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCAT        <  SRR4302535.544216/94‑1 (MQ=60)
                                                                                       GTACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGA      >  SRR4302535.3920736/1‑94 (MQ=60)
                                                                                        TACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGAC     >  SRR4302535.3397980/1‑94 (MQ=60)
                                                                                        TACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGAC     >  SRR4302535.2956966/1‑94 (MQ=60)
                                                                                         ACCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACT    >  SRR4302535.2895133/1‑94 (MQ=60)
                                                                                         ACCGCGCCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACT    <  SRR4302535.4482496/94‑1 (MQ=60)
                                                                                          CCGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTA   >  SRR4302535.2586597/1‑94 (MQ=60)
                                                                                           CGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAA  >  SRR4302535.3753231/1‑94 (MQ=60)
                                                                                           CGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAA  >  SRR4302535.1559670/1‑94 (MQ=60)
                                                                                           CGCGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAA  >  SRR4302535.3859797/1‑94 (MQ=60)
                                                                                            |                                                                                            
TTAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTCCCGCCAGTATCAGGGCAACAGATTTCAATGGCAGCTGGCGCGCCAACATTAAGTGATCGTTCTTCTCTAAACTAACCATGACTAA  >  NC_000913/3566783‑3566967

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑