Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 35,850 C→T 42.6% intergenic (+81/+27) USA300HOU_0025 → / ← USA300HOU_0026 hypothetical protein/IS431mec transposase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073035,8500CT42.6% 125.4 / 106.9 114intergenic (+81/+27)USA300HOU_0025/USA300HOU_0026hypothetical protein/IS431mec transposase
Reads supporting (aligned to +/- strand):  ref base C (41/23);  new base T (22/26);  total (64/50)
Fisher's exact test for biased strand distribution p-value = 8.27e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.87e-01

Only 100 of 115 total aligned reads displayed.

CTCATTGACAAAGTATTTAATGTAGAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTTATATA  >  CP000730/35710‑35956
                                                                                                                                            |                                                                                                          
ctcATTGACAAAGTATTTAATGTAGAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAAc                                                                                                            <  1:341514/141‑1 (MQ=255)
               tttAATGTAGAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCAtt                                                                                             >  1:634667/1‑140 (MQ=255)
               tgtAATGGTGAAGCTATTGAGTATAAAGGTTTTGGCGAAAAATGATTACTTGAACAAGGGATAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGGAAAGGAAAAAAATATAGCTAACCACTAATTTATCATg                                                                                             <  2:532993/139‑1 (MQ=37)
                  aaTGTAGAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGAGTACTGGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCa                                                                                          >  1:560485/1‑141 (MQ=255)
                     gTAGAAGATATTCAGTATAAAGTTTTTGGCGAAAAATGGTTGCTTGAACAAGAGCTAAAATCAAATTGTGATCTAATAAAAATAGAAGGTGCTGTTGCAAAGTAAAAAAATATAGCTACCCACTAATTTATTATGTAAgtt                                                                                       >  2:425298/1‑140 (MQ=37)
                      tAGAAGCTATTCAGTATAAAGTTTTTTTTTTTTTATGATTACTTGAACAAGAGATAAAATAAAATTGTGACCTAATAAAAATAGAAGGTGCTGTTTCAAAGTAAAAAAATATAGCTAACCACTAATTTAGAATGTTAgttt                                                                                      >  2:954048/1‑139 (MQ=25)
                      tAGAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAgtgt                                                                                      <  1:38360/141‑1 (MQ=255)
                        gAAGCTATTCAGTATCAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTATGATCTAATAAAAATAGAAGGTACTGTTGCAAAGTCAAAAAAAATAGCTAAACACTAATTTATCaatatgatgttc                                                                                    >  2:822882/1‑130 (MQ=255)
                        gAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTc                                                                                    >  1:251378/1‑141 (MQ=255)
                        gAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAACACATCATGCTTTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTc                                                                                    >  1:503491/1‑141 (MQ=37)
                            cTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCtt                                                                                <  1:728697/141‑1 (MQ=255)
                              aTTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTaa                                                                              <  1:575768/141‑1 (MQ=255)
                              aTTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTaa                                                                              >  2:863764/1‑141 (MQ=255)
                                 cAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCACTTAACtt                                                                           >  2:307110/1‑141 (MQ=255)
                                  aGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTg                                                                          >  1:481578/1‑141 (MQ=255)
                                    tataAAGTTTTTGGTGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCt                                                                        <  2:701441/141‑1 (MQ=255)
                                    tataAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTCCt                                                                        >  2:864405/1‑141 (MQ=255)
                                    gataAAGGTTATGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCt                                                                        <  1:981403/140‑1 (MQ=255)
                                    aataAAGTTTTTAGCGAAAAAGGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAATAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCt                                                                        <  1:981310/140‑1 (MQ=255)
                                        aaGTTTTTGGCGAAAAATGATTATGGGAACAAGAGCGAAAATAAGATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAACAAATATGGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCa                                                                    >  2:228692/1‑141 (MQ=21)
                                        aaGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCa                                                                    >  1:535387/1‑141 (MQ=255)
                                        aaGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCa                                                                    >  2:302298/1‑141 (MQ=255)
                                           tttttGGCGAAAAATGATTACTTGAACAAGAGCTCAAACAAAAGTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCatga                                                                 >  1:1048009/1‑141 (MQ=255)
                                             tttGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATCGCTAACCACTAATTTATCATGTCAGTGCTCGCTTAACTTGCTAGCatgatg                                                               <  2:418202/141‑1 (MQ=255)
                                               tGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCt                                                             <  1:612994/141‑1 (MQ=255)
                                               tGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGGTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCt                                                             >  1:613353/1‑141 (MQ=255)
                                                ggCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCCTGTCAGTGTACGCTTAACTTGCTAGCATGATGCTa                                                            >  2:1011866/1‑141 (MQ=255)
                                                ggCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTTGCTTAACTTGCTAGCATGATGCTa                                                            >  1:23376/1‑141 (MQ=255)
                                                            ttACTTGCACAAGAGCTAAATTAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGAAAAAAAATATAGCTAACCTCTAATTTATCATGTCAGTGTTCGATTAACTTGCTTGCATGATGCTAATTTCGTGGCAt                                                >  1:669136/1‑141 (MQ=18)
                                                            ttACATGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAAGATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCAt                                                >  2:733932/1‑141 (MQ=255)
                                                                         agCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATGGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGt                                   >  1:649288/1‑141 (MQ=255)
                                                                           cTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTCACTTGCTAGCCTGATGCTAATTTCGTGGCATGGCGAAAGCCCGTAg                                 >  2:131953/1‑141 (MQ=255)
                                                                            taaaataaaaTTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCCCTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGa                                >  1:18956/1‑141 (MQ=255)
                                                                              aaataaaatTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATc                              >  2:820408/1‑141 (MQ=255)
                                                                               aataaaatTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCt                             >  1:630667/1‑141 (MQ=255)
                                                                                acaaaagagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATGACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGaa                          >  2:711322/15‑141 (MQ=11)
                                                                                acaaaagagtattttaataaAAATGATGGGTCTGTTGCAAAGTAATAAATATAGCTAATAACTAATATATCATGTCAGTATTCGTTTAAATTGCTAGCATGATGCTAATTTCATGGCATGGGGCAAATCCGCAGATCTGaa                          >  2:514646/15‑141 (MQ=2)
                                                                                  aactgagtattttaataaAAATGATGGTTCTGTTGCAAAGTAATAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAaga                        <  2:728483/129‑1 (MQ=11)
                                                                                  aaaagagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAaga                        <  1:878693/129‑1 (MQ=11)
                                                                                  aaaagagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAaga                        <  2:855521/129‑1 (MQ=11)
                                                                                  aaaagagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAaga                        <  1:679751/129‑1 (MQ=11)
                                                                                   aaatTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCATAGATCTggaa                         >  1:891641/1‑138 (MQ=255)
                                                                                    aatTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTGATTTATCAGGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAaga                        >  2:908930/1‑141 (MQ=255)
                                                                                    aatTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAaga                        >  2:1044580/1‑141 (MQ=255)
                                                                                    aagagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAgaga                      <  2:20577/131‑1 (MQ=11)
                                                                                     agattattCTAATAAAAATGACGCTTCTGTTGTAAAGTAAAAAATATAGCTAATCACCAATATATCCTGTCAGTGTGCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCCGAAgtgaa                     <  2:180925/134‑2 (MQ=11)
                                                                                     agagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTCATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGAc                     <  2:936461/132‑1 (MQ=11)
                                                                                     agagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGAc                     <  1:359737/132‑1 (MQ=11)
                                                                                     agagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTCTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGAc                     <  2:408003/132‑1 (MQ=11)
                                                                                      gagtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGAcc                    >  1:76510/9‑141 (MQ=11)
                                                                                       tgtgATCTAATAAAACTAGAAGGTTCTGTTGCAAAGTAAAGAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGGTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGAc                     <  1:929180/141‑1 (MQ=255)
                                                                                       tgtgATCTAATAAAAATAGAACGTTCTACTCAAACGAACAAAAATATAGCCAACCGCTGATTTGTCAGGTCAATTTTCGCTGAACTGTGTACCATTATGCTAATTTCGTGGCAGGGCGAAAATCCGTAGATCTGAAGAGAc                     <  2:354817/141‑1 (MQ=9)
                                                                                       agtattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTCATCACTAATATCTCATGTCATTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCt                   <  2:377173/134‑1 (MQ=11)
                                                                                        gtattttaataaAAATGATGGCTCTGTTGCAAAGTAAAAAATATAGCTATTCACGAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTg                  <  1:141559/135‑1 (MQ=11)
                                                                                         tattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATATCTAATTACTAATATTTTTTGTTTGTTTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGc                 >  2:706637/6‑141 (MQ=11)
                                                                                         tattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGc                 <  2:915771/136‑1 (MQ=11)
                                                                                         tattttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGc                 <  1:1049656/136‑1 (MQ=11)
                                                                                          gagcTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCCGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTg                  <  2:339580/138‑1 (MQ=255)
                                                                                          attttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGCTCTGAAGAGACCTCCg                >  2:427998/5‑141 (MQ=11)
                                                                                          attttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCg                >  1:415276/5‑141 (MQ=11)
                                                                                          attttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCg                <  1:809754/137‑1 (MQ=11)
                                                                                          attttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCg                <  1:317039/137‑1 (MQ=11)
                                                                                          attttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCg                >  1:752790/5‑141 (MQ=11)
                                                                                          attttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCg                >  2:842339/5‑141 (MQ=11)
                                                                                           ttttaataaAAATGTTGGTTCTCTTGCAAAGTAAAAAATTTAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               <  2:93710/138‑1 (MQ=11)
                                                                                           ttttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTGATATATCACGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               <  2:40379/138‑1 (MQ=11)
                                                                                           ttttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               <  1:810969/138‑1 (MQ=11)
                                                                                           ttttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               <  2:1049545/138‑1 (MQ=11)
                                                                                           ttttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTCAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               >  2:1037636/4‑141 (MQ=11)
                                                                                           ttttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAAGATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               >  1:559041/4‑141 (MQ=11)
                                                                                           ttttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATAGAACTGATCGCTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               >  1:250794/4‑141 (MQ=11)
                                                                                           ttttaataaAAAGGATGGTTCTGATGCAACATAAAAAATATAGCCAAGCACTAATCTATCATGTCAGTGTTCGTTTAACTTGCTAGCACGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               <  1:298438/138‑1 (MQ=11)
                                                                                           aTCTAATAAAAATCGAAGGTTCTTGTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGc                 <  1:286100/141‑1 (MQ=255)
                                                                                            tttaataaAAATGATGGTTCTGTTGTAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGt              <  1:128496/139‑1 (MQ=11)
                                                                                            tttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGt              <  2:807554/139‑1 (MQ=11)
                                                                                            ttcaataaAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCg                <  2:205616/138‑1 (MQ=255)
                                                                                             ttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATTGCTAATCGCTAATATATCATGTCAGTGTTCGTTTAACTTGCTCGCATGATGCTAATTTCGTGGCATGGCGAAGATCTGTAGCTCTGTAGGGACCTGCGGtt             >  1:63753/2‑141 (MQ=11)
                                                                                             ttaataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGtt             <  1:331281/140‑1 (MQ=11)
                                                                                             ttaataaAAATGATGGTACTGTTGCAAAGTAAAAAATATAGCTAATCATTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGtt             <  2:618766/140‑1 (MQ=11)
                                                                                             tcatattaaaTAGCTGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCCGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATTGGGAAAATCCGTAGATCTGAAGAGAACTACGGt              >  2:326890/8‑141 (MQ=11)
                                                                                             taaaaaaataTAAAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               <  2:634667/136‑1 (MQ=12)
                                                                                             cTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGAgg               >  1:339667/1‑141 (MQ=255)
                                                                                             cTAATAAAAATAGAAGGTTCTGTAGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTAGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCgg               >  2:759524/1‑141 (MQ=255)
                                                                                              taataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGGTCTGAAGAGACCTGCGGTTc            >  2:296800/1‑141 (MQ=11)
                                                                                              taataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAGGAGACCTGCGGttt            >  1:223600/1‑140 (MQ=11)
                                                                                              taataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTc            <  1:362143/141‑1 (MQ=11)
                                                                                              taataaAAATGATGGATCTGTTGCAAAGTAAAAATGATAGCTCATCACTAATATATCATGTCAGCGTACGTTGAGCTTGCTAGCATGATGATAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTc            >  1:792935/1‑141 (MQ=11)
                                                                                               aataaAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGAATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGtt             >  2:405487/1‑141 (MQ=255)
                                                                                               aataaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGtttt           >  1:888645/1‑139 (MQ=11)
                                                                                                 taaAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATGTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCt           <  1:411365/141‑1 (MQ=38)
                                                                                                 taaAAATGATGGTTCTGTTGCAAAGTAAAAAATATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCttt         <  1:488396/141‑1 (MQ=11)
                                                                                                  aaaaatgtgtgggtctcTTGCAAAGTAAAAAATTTAGCTAATCACTACTCTCTCATGTCAGTGTTCGTTTAACTTGCTCGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAACAGACCTGCGGTTCttt         <  2:208488/128‑1 (MQ=1)
                                                                                                   aaaaTAGAAGGTCCTGTTGCAAAGTAAAAAAATATAGCTAACCCGTAATTTATCATGTCAGTGTTCGCTTAACTTTCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCttt         <  2:545003/141‑1 (MQ=255)
                                                                                                    caaatgctggctCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCtttt        >  2:517100/12‑141 (MQ=0)
                                                                                                       tAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTtat     <  1:98650/141‑1 (MQ=32)
                                                                                                        aGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTtata    <  2:75944/141‑1 (MQ=32)
                                                                                                         ggaagtacTGTTTCAGAGTAATAAGTATAGCTAATCACTAATATATCATGTCAGTGTTCGTTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTtatata  >  2:888788/8‑141 (MQ=1)
                                                                                                         gAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTtatat   >  2:213725/1‑141 (MQ=31)
                                                                                                          aaGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGGATGGCGCAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTtatata  <  1:727516/141‑1 (MQ=11)
                                                                                                          aaGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTtatata  >  1:650425/1‑141 (MQ=11)
                                                                                                                                            |                                                                                                          
CTCATTGACAAAGTATTTAATGTAGAAGCTATTCAGTATAAAGTTTTTGGCGAAAAATGATTACTTGAACAAGAGCTAAAATAAAATTGTGATCTAATAAAAATAGAAGGTTCTGTTGCAAAGTAAAAAAATATAGCTAACCACTAATTTATCATGTCAGTGTTCGCTTAACTTGCTAGCATGATGCTAATTTCGTGGCATGGCGAAAATCCGTAGATCTGAAGAGACCTGCGGTTCTTTTTATATA  >  CP000730/35710‑35956

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: