Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 110,660 T→A 9.5% I173I (ATT→ATA)  USA300HOU_RS00515 → putative lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE110,6600TA 9.5% 253.6 / 11.8 90I173I (ATT→ATA) USA300HOU_RS00515putative lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (32/49);  new base A (4/5);  total (36/54)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAGGGAATT  >  USA300TCH1516_ALE/110521‑110799
                                                                                                                                           |                                                                                                                                           
cGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATAttt                                                                                                                                            <  1:677712/141‑1 (MQ=255)
cGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATAttt                                                                                                                                            <  1:885493/141‑1 (MQ=255)
cGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAAGTATAAAGACGGAGATAttt                                                                                                                                            <  1:565527/141‑1 (MQ=255)
  gTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCa                                                                                                                                          <  2:285433/141‑1 (MQ=255)
     aaaaTGGTCAATAATAAAAACATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCatat                                                                                                                                       <  2:140472/141‑1 (MQ=255)
       aaTGATCGATAATAAAATCATTCCAACAAAAGCAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATaa                                                                                                                                     >  1:674176/1‑141 (MQ=255)
        aTGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAAt                                                                                                                                    <  2:616640/141‑1 (MQ=255)
            tCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTGGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCaa                                                                                                                                >  1:581982/1‑140 (MQ=255)
                   taaAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATACAGAGGTGcc                                                                                                                         >  2:484512/1‑141 (MQ=255)
                    aaaaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAAACGGAGATATTTCATATAATCCAGAGGTGCCg                                                                                                                        >  2:14127/1‑141 (MQ=255)
                    aaaaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGACGACTTTAAAGATTTGAAAAATTATAGAGATGATGTTATTTTATATAATCAAGAGTTGcca                                                                                                                        >  1:205412/1‑140 (MQ=17)
                     aaaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGa                                                                                                                       <  2:495007/141‑1 (MQ=255)
                      aaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAGAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAg                                                                                                                      >  2:471437/1‑141 (MQ=255)
                      aaTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTAAATATGGCGACATTAAAAATTTGACAAATTATAAAGACGGAGATATTTCATATAATACAGAGATGCCGAg                                                                                                                      >  2:414860/1‑141 (MQ=17)
                       aTCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGt                                                                                                                     >  2:864891/1‑141 (MQ=255)
                             ccAACAATAGAAATTAAAGAGGAAAAAATAAAAAAAGAAATCGAAAACTTGAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAAGCCAGAGGTGCCGAGTTATTCg                                                                                                               <  1:158057/141‑1 (MQ=255)
                             aaaaaaaaaTAAAGTAAAGATAAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCg                                                                                                               <  1:157904/136‑1 (MQ=255)
                              caacaaAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCgg                                                                                                              <  1:663939/141‑1 (MQ=255)
                                       aaaTTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGCCTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATc                                                                                                     >  1:424335/1‑141 (MQ=255)
                                       aaaTAAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTAAAGTTCTTTGTTAAATATGGAGACTTTAAAAATTTGAAGAATTATAAAGACAGAGATATTACATATAAACCCGAGGTGCCGAGTTATTCGGCTAAATATc                                                                                                     >  2:407327/1‑141 (MQ=14)
                                             aaGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGATGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTaa                                                                                               <  2:548886/141‑1 (MQ=255)
                                             aaGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTaa                                                                                               >  1:635704/1‑141 (MQ=255)
                                               aaagAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACt                                                                                             <  2:7480/138‑1 (MQ=255)
                                                ccgAAAAAATAAAAAAAGACATCGAATACTATAAGTACTTTGTTCACTACGGCGACTTTAAAAATTTGAAAAATTATAAACACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATCTCAATTAACTa                                                                                            <  2:158662/139‑1 (MQ=17)
                                                aTGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCTAGTTATTCGGCTAAATATCAATTAACTa                                                                                            <  1:599035/141‑1 (MQ=255)
                                                aTGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTa                                                                                            <  2:588017/141‑1 (MQ=255)
                                                aTGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTAAATATGGCGACTTTAAAAATTAGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTa                                                                                            >  2:785948/1‑141 (MQ=255)
                                                 tGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTGGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTaa                                                                                           >  2:861002/1‑141 (MQ=255)
                                                  gAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAat                                                                                          <  1:182337/141‑1 (MQ=255)
                                                      aaaTAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAatgatg                                                                                      <  2:138982/141‑1 (MQ=255)
                                                        aTAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTGGGCTAAATATCAATTAACTAATgatgat                                                                                    >  2:481573/1‑141 (MQ=255)
                                                        aTAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTCATgatgat                                                                                    >  2:715815/1‑141 (MQ=255)
                                                          aaaaaaaGAAATCGAAAACGTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATCTGATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATta                                                                                  <  1:366642/141‑1 (MQ=255)
                                                             aaaaGAAATCGAAAACTTTAAGTTCGTTGTTCAATATGGCGAATTAAAAAATATGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCTATTAACTAATGATGATTATaa                                                                               <  1:491249/141‑1 (MQ=17)
                                                              aaaGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGATGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAAt                                                                              >  2:48677/1‑141 (MQ=255)
                                                              aaaGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAAGTGCCGAGTTATTCGGCTGAATATCAATTACATAATGACGGTTCTAAt                                                                              >  2:204522/1‑141 (MQ=17)
                                                              aaaGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCAAGAGGTGCCGAGCTATTCGGCTAAATATGAAGGAACGAATGATGATTATaag                                                                              >  2:648494/1‑140 (MQ=17)
                                                                 aaaaTCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTa                                                                           <  2:745532/140‑1 (MQ=255)
                                                                        aaaaCTTTTAGTTCTTTGTTCAATATCGCGACTTTAAAAAGTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                    <  1:248743/141‑1 (MQ=255)
                                                                        aaaaCTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                    <  1:818225/141‑1 (MQ=255)
                                                                        aaaaCCTTAAGTTCGTTGTTCAATAGGGCGACTTTAAAAATTTGAAAAACTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTGATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                    <  1:291865/141‑1 (MQ=17)
                                                                         aaaCTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTGGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGTTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTTTAATATAAAACAAtt                                                                   >  2:249486/1‑141 (MQ=255)
                                                                            cTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACg                                                                <  2:302384/141‑1 (MQ=255)
                                                                            cTTTAAGTTCTTTGTTCAATAGGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACg                                                                <  1:325682/141‑1 (MQ=255)
                                                                             tttAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGATGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAGCTAATGATGATTATAATGTAAAACAATTACGc                                                               >  1:630580/1‑141 (MQ=255)
                                                                             tttAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGc                                                               <  2:520762/141‑1 (MQ=255)
                                                                               tAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaa                                                             <  1:896458/141‑1 (MQ=255)
                                                                               tAAGTGCGTTCTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaa                                                             <  1:426006/141‑1 (MQ=255)
                                                                                aaGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGTTGATTATAATGTAAAACAATTACGCaaa                                                            <  1:596744/141‑1 (MQ=255)
                                                                                aaGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaa                                                            <  2:779595/141‑1 (MQ=255)
                                                                                aaGTTCTTTCTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaa                                                            <  1:207443/141‑1 (MQ=255)
                                                                                      tttGTTCAATATGGCGACTTTAAAAATTTGAAAGATTATTAAGACGGAGATCTTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAGAAAAATAAGGAAAAAgatat                                                      >  1:691242/1‑141 (MQ=17)
                                                                                      tttGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatat                                                      >  1:512436/1‑141 (MQ=255)
                                                                                      tttGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCAAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatat                                                      >  2:589420/1‑141 (MQ=255)
                                                                                          ttaattatGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatatgata                                                  <  2:18284/136‑1 (MQ=255)
                                                                                            cAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                >  1:39082/1‑141 (MQ=255)
                                                                                            cAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                <  2:635704/141‑1 (MQ=255)
                                                                                                 tGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACcgac                                           >  2:538502/1‑141 (MQ=255)
                                                                                                   gCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACcgacga                                         >  1:557062/1‑141 (MQ=255)
                                                                                                         ttaaaaattttaaaaattATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAg                                   <  2:482182/141‑1 (MQ=255)
                                                                                                         ttAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAg                                   <  2:398012/141‑1 (MQ=255)
                                                                                                         ttAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAg                                   <  2:387159/141‑1 (MQ=255)
                                                                                                         ttAAAAATTTCAAAAATCATAAATCCGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAg                                   <  2:483023/141‑1 (MQ=255)
                                                                                                          tAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGTTATGATATACCGACGAGTAAAGc                                  <  2:674176/141‑1 (MQ=255)
                                                                                                            aaaaTTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTc                                <  1:22182/141‑1 (MQ=255)
                                                                                                            aaaaTTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTc                                >  1:359103/1‑141 (MQ=255)
                                                                                                             aaaTTTGGAAAATTCTAAAGGAGGAGAGATTCCATATATTGCATGGGTGCTGAGTTAGTCGGGTAAATGTCAATTAAGTTATGATGATTAGAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTcc                               <  2:648782/141‑1 (MQ=255)
                                                                                                             aaaTTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTcc                               <  2:892459/141‑1 (MQ=255)
                                                                                                                    aaaaaTTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAATCAATTACGCCAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTa                        <  1:452963/141‑1 (MQ=255)
                                                                                                                     aaaaTTATAAAGGCGGAGATATTGCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTAt                       >  2:935370/1‑141 (MQ=255)
                                                                                                                         ttATAAAGACGGAGATATTTCATATAATCGCGAGCTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGtt                   <  2:877258/141‑1 (MQ=255)
                                                                                                                         ttATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGtt                   <  1:584718/141‑1 (MQ=255)
                                                                                                                         ttATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAACCTCCAAAGTTATTGtt                   >  2:873912/1‑141 (MQ=255)
                                                                                                                           ataAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTaa                 <  2:746011/141‑1 (MQ=255)
                                                                                                                            aaaaGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTaaa                <  1:626545/140‑1 (MQ=255)
                                                                                                                                gACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGt            <  2:925942/141‑1 (MQ=255)
                                                                                                                                gACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGt            >  2:300721/1‑141 (MQ=255)
                                                                                                                                gACGGACATATTTCATATAATCGAAAGGTGCCGAGTTATTTCGCTAAATGTCAATTAACTAAAGCTGATTATAATGTAAAACGATTACGAAAAAGATACGATATACCGACGAATATAGCTCCAAAGTTATTGTTAAAAGGt            <  2:486958/141‑1 (MQ=255)
                                                                                                                                 aCGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTCAATATAGGGTAGTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGtt           <  1:448404/141‑1 (MQ=18)
                                                                                                                                 aCGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGtt           <  1:916814/141‑1 (MQ=255)
                                                                                                                                 aCGGAGATATTTCACATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAACGGtt           <  1:672823/141‑1 (MQ=255)
                                                                                                                                  tggAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTc          <  1:542294/140‑1 (MQ=255)
                                                                                                                                  tggAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTc          >  1:372476/2‑141 (MQ=255)
                                                                                                                                  cGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATAGCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTc          <  1:381512/141‑1 (MQ=255)
                                                                                                                                   ggAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCa         >  2:64132/1‑141 (MQ=255)
                                                                                                                                    gagaTATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAg        >  2:209877/1‑141 (MQ=255)
                                                                                                                                    gagaTATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTGTTGATAAAAGCTTAAg        >  2:410782/1‑141 (MQ=17)
                                                                                                                                     agaTATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAGCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAgg       <  2:612719/141‑1 (MQ=255)
                                                                                                                                     agaTATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAgg       <  2:149174/141‑1 (MQ=255)
                                                                                                                                     agaTATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATACAAATTAACTAATGATGATTATAATGTAAAACTACTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAgg       <  2:309287/141‑1 (MQ=18)
                                                                                                                                      gaTATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAggg      >  2:11305/1‑141 (MQ=255)
                                                                                                                                        tatTTCATTTAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAATATATGATATACCGACGAGTAAAGCTTCAAAGTTGTTGTTAAAAGGTTCAGGGaa    <  1:610936/141‑1 (MQ=255)
                                                                                                                                         atTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAGGGAAt   >  2:418932/1‑141 (MQ=255)
                                                                                                                                          tttCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAACGCTCCAAAGTTATTGTTAAAAGGTTCAGGGAAtt  >  1:896297/1‑141 (MQ=255)
                                                                                                                                           |                                                                                                                                           
CGGTTAAAATGGTCGATAATAAAATCATTCCAACAAAAGAAATTAAAGATGAAAAAATAAAAAAAGAAATCGAAAACTTTAAGTTCTTTGTTCAATATGGCGACTTTAAAAATTTGAAAAATTATAAAGACGGAGATATTTCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATACCGACGAGTAAAGCTCCAAAGTTATTGTTAAAAGGTTCAGGGAATT  >  USA300TCH1516_ALE/110521‑110799

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: ‑