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 F104 I0 R1 54 57.6 1336546 96.4% 1288430 141.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000731 25,663 Δ1 bp 100% coding (316/333 nt) USA300HOU_pUSA300HOUMR0031 → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073125,6630A.94.4% 982.1 / 34.2 230coding (316/333 nt)USA300HOU_pUSA300HOUMR0031hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (1/10);  new base . (108/109);  total (111/119)
Fisher's exact test for biased strand distribution p-value = 1.07e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

Only 100 of 248 total aligned reads displayed.

TTGTATGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACAATA  >  CP000731/25524‑25800
                                                                                                                                           |                                                                                                                                         
   tatGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaa                                                                                                                                       >  2:150481/1‑141 (MQ=255)
   tatGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaa                                                                                                                                       <  2:441406/141‑1 (MQ=255)
     tGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTGCAAATaaaaaat                                                                                                                                     >  1:203739/1‑140 (MQ=255)
     tGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaat                                                                                                                                     >  1:417917/1‑140 (MQ=255)
          tttACACTAGTTCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACa                                                                                                                               <  1:546789/141‑1 (MQ=255)
          tttACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACa                                                                                                                               >  1:474436/1‑141 (MQ=255)
            tccataaGTGCTTAAATTGACTGGTTCGTCACCAAGTATTGAAGGAACTTGGTTTTCTCAATATACAGAAATTTTTTTTATAATTGTATCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATc                                                                                                                             <  2:379443/135‑1 (MQ=255)
              cacTAGTGCTTAAATTTACAGGTTCGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTa                                                                                                                           <  1:31114/141‑1 (MQ=255)
                cTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTaaa                                                                                                                         >  1:412534/1‑141 (MQ=255)
                  attgattAAAATTACAGATTTGTCACCAAGTATTGAAGGATCTTTGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTACCACTATTTCTTATGCTGTTTAATTATTATA‑AAAAAAAAAAAAAATATACATCTAAAgg                                                                                                                       <  2:590691/136‑1 (MQ=255)
                      tttAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATACAGAAAATTTCTTTATAATTGTAGTAATATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTaa                                                                                                                   <  1:135878/140‑1 (MQ=255)
                      cTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGttga                                                                                                                   >  1:225032/1‑139 (MQ=255)
                       ttAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTaaa                                                                                                                  >  2:274888/1‑141 (MQ=255)
                            tttACAGGCTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATAACTATACTACAAAT‑AAAAAATATACATCTAAAGATTAAATTAAt                                                                                                             >  2:312654/1‑141 (MQ=255)
                             ttACAGGTTTCTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATg                                                                                                            <  2:165986/141‑1 (MQ=255)
                              taaaGGTTTGTCACCAAGTATTGAAGGATTTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGa                                                                                                           <  2:330279/138‑1 (MQ=255)
                                cAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATAGTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGaaa                                                                                                         >  1:585962/1‑141 (MQ=255)
                                cAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATAAAACTAAGGGTTAAATTAATGaaa                                                                                                         >  1:105532/1‑141 (MQ=255)
                                   gTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAAt                                                                                                      >  1:33511/1‑141 (MQ=255)
                                   gTTTGTCAACAAGTATTGAAGGATATTGGTTTGCTCCATAACACAATATCGTGTTTATAATTGTAGCAATATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAAt                                                                                                      <  1:313545/141‑1 (MQ=255)
                                    tttGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATa                                                                                                     >  2:218648/1‑141 (MQ=255)
                                      tGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGa                                                                                                   <  1:659295/141‑1 (MQ=255)
                                        taagcatgTATTGAAGGATCTTTGTTTTCTCAAAATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑ATAAAATATACATCTAAAGGTTAAATTAATAAAAAATAGAAt                                                                                                 <  2:432836/134‑1 (MQ=255)
                                        tCACCAAGTATTGAAGGATCATGTTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAAt                                                                                                 >  2:643718/1‑141 (MQ=255)
                                         cACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAAtt                                                                                                <  1:528057/141‑1 (MQ=255)
                                         cACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAAtt                                                                                                >  1:63164/1‑141 (MQ=255)
                                         cACCAAGTATTGAAGGATCTTGATTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAAtt                                                                                                >  2:486853/1‑141 (MQ=255)
                                          aCCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTa                                                                                               >  2:192047/1‑141 (MQ=255)
                                          aCCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATATAAAGGTTAAATTAATGAAAAATAGAATTa                                                                                               >  1:54868/1‑141 (MQ=255)
                                            cAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTaga                                                                                             >  1:96420/1‑141 (MQ=255)
                                            cAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTaga                                                                                             >  2:387338/1‑141 (MQ=255)
                                            cAAGTAGTGAAGAATCTGAGTGTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAACAATAT‑CAACTAAAGGTTAAATTAATGAAAAATAGAATTaga                                                                                             >  2:467098/1‑141 (MQ=255)
                                             aaGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTagag                                                                                            <  1:465603/141‑1 (MQ=255)
                                             aaGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTagag                                                                                            <  1:365099/141‑1 (MQ=255)
                                               atagttaaGGATCTTAGTTTTCTCAATAACCAGAAATTTTCTTTATAAATGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGaa                                                                                          <  2:454438/135‑1 (MQ=255)
                                                 aTTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAata                                                                                        >  2:529791/1‑141 (MQ=255)
                                                   tGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                      >  2:617699/1‑141 (MQ=255)
                                                   tGAAGGATCTTGGTTTTCTCAATATCCAGAAAGTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCCAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                      >  1:476282/1‑141 (MQ=255)
                                                   cgAAGGACCTTGGTTTTCTAGATATCCATATATTTTCATTATAATTCTATCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                      >  2:660026/2‑141 (MQ=255)
                                                    gAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAg                                                                                     >  1:182690/1‑141 (MQ=255)
                                                     aaGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTACAGGTTAAATTAATCAAAAATAGAATTAGAGAATATAGa                                                                                    <  1:427839/141‑1 (MQ=255)
                                                      aGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGaa                                                                                   <  1:361195/141‑1 (MQ=255)
                                                      aGGATCTTGGTTTTCTCAATATCAAGAAATTTTCTTTATAATTGTAGCACTATTTTTTATGCTGGTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGaa                                                                                   <  2:401340/141‑1 (MQ=255)
                                                        gATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCGCTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGaaaa                                                                                 >  2:500559/1‑141 (MQ=255)
                                                         ttCTTTGTTTTCTAAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAACTATACATATAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAAc                                                                                <  1:303459/140‑1 (MQ=255)
                                                         aTCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTATCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAAc                                                                                <  1:497217/141‑1 (MQ=255)
                                                            ttGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaa                                                                             >  1:248640/1‑141 (MQ=255)
                                                            ttGGTTTTCTCAATAACCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAACT‑AAAAAATATACACCTACAGGTTCAATTAATCCAAAATCCAACTAGAGCATATACAAACCaca                                                                             >  1:494715/1‑139 (MQ=255)
                                                              ggTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaaaa                                                                           >  1:65336/1‑141 (MQ=255)
                                                                ttttCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGACAATATAGAAAACAAAAAgg                                                                         <  1:366431/141‑1 (MQ=255)
                                                                ttgtcacAATATCCATAAATTTTCTTTAAAACTGTAACACTATTTCTTATGCTGTTTAATTACTATACTACAAA‑AAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAgg                                                                         <  2:115541/135‑1 (MQ=255)
                                                                 tttCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTAGTATTATACAAAT‑AAAAAGTGTACATCTAATTGTTAAATTAATGAAAAATAGAATTAGAGAATGTAGAATACCAAAAgta                                                                        >  2:72366/1‑139 (MQ=255)
                                                                     ttaaTATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAttt                                                                    <  1:605263/139‑1 (MQ=255)
                                                                     tcAATATCCAGGAATCTTCTTTATAATTGTACAACTATTTCTTATGCTGTTTAATTACCATACTACAAA‑AAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAttt                                                                    <  1:10023/141‑1 (MQ=255)
                                                                     tcAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAttt                                                                    <  1:645700/141‑1 (MQ=255)
                                                                      cAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAttta                                                                   >  2:548074/1‑140 (MQ=255)
                                                                      cAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtc                                                                   >  2:60611/1‑141 (MQ=255)
                                                                      cAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtc                                                                   <  1:280118/141‑1 (MQ=255)
                                                                           tCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATAAATGAAAAAAAGAATTAGAGAATATAGAAAACAAAAAGGAAATTCTCAAg                                                              >  2:290096/1‑141 (MQ=255)
                                                                             cAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGaa                                                            >  1:665463/1‑141 (MQ=255)
                                                                                aaaTTTTCTTTATAATTGTAGCACTATTTTTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTTAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAGAACAAAAAGGAATTTTTTAAGAAACt                                                         >  2:247443/1‑141 (MQ=255)
                                                                                 acttttCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACtt                                                        >  2:576066/3‑141 (MQ=255)
                                                                                   ttttCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACtata                                                      >  1:143090/1‑141 (MQ=255)
                                                                                     ttCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAg                                                    >  1:613552/1‑141 (MQ=255)
                                                                                     ttCATTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATAAAAAAAAAAAAAAGGAATTTCTCAAGAAACTTTAAg                                                    <  2:367020/141‑1 (MQ=255)
                                                                                       cTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTa                                                  >  1:289615/1‑141 (MQ=255)
                                                                                       cTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTa                                                  >  2:50480/1‑141 (MQ=255)
                                                                                        tttATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTACAGGTTAAATTAATGAAAAATAGAATTAGAGTATTTACAAAACAAAAAGTTATTTCTCAAGATACTTTAAGTaa                                                 <  2:557298/141‑1 (MQ=255)
                                                                                         ttATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTaaa                                                <  1:108773/141‑1 (MQ=255)
                                                                                           ataATTGAAGTACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGa                                              <  2:109344/141‑1 (MQ=255)
                                                                                           aaaaTTGTAGCACTATTTCTTATGCAGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGa                                              <  2:86860/139‑1 (MQ=255)
                                                                                              aTTGTATCAATATTTCTTAGGCAGTTTAAATACTA‑AAGAAAAAAAAAAAAATATACAACTAAAGGTAAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAAtt                                           <  1:518562/141‑1 (MQ=255)
                                                                                              aTTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAAtt                                           <  1:297653/141‑1 (MQ=255)
                                                                                              aTTGTAGCACTATTTCGTATGCTGGTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAAGTAGAGAATATAGAAACCAACAAGGAATTTCTCAAGCAACTATAAGCAAAGAAtt                                           <  2:159701/141‑1 (MQ=255)
                                                                                                 gTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaa                                        >  1:561772/1‑141 (MQ=255)
                                                                                                 gTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaa                                        >  1:276786/1‑141 (MQ=255)
                                                                                                  tAGCACTATTTCGTATGCTGTTTAATTACTATACTAGAAAT‑AAAAAATATACATGTAAAGGTTAAATTAATGAAAACTAGAATTAGAGAATATAGAATAAAAAAAGGAATTTATCAAGAAACTTTAAGTAAAGAATTaaaa                                       >  2:269518/1‑141 (MQ=255)
                                                                                                     cACTATTTCTAATGCTGTTTAATTACTATAATACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAAGAGAATCAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAgtg                                    <  1:618721/141‑1 (MQ=255)
                                                                                                       cTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATGGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAgtgta                                  >  1:188627/1‑140 (MQ=255)
                                                                                                          tttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAg                               <  1:387338/141‑1 (MQ=255)
                                                                                                          tttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAg                               >  1:543789/1‑141 (MQ=255)
                                                                                                           ttCTTATGCTATTTAATTAATATACTACAAAT‑AATAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATGAGAAAATATAAAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAgg                              <  2:652145/141‑1 (MQ=255)
                                                                                                            tCTTATGCTATTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGc                             <  2:250571/141‑1 (MQ=255)
                                                                                                             tttATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCa                            <  1:395449/140‑1 (MQ=255)
                                                                                                             cTTATGCTGTTTAAACATTATACTACAAAT‑AAAAAATAGACATCTAAAGGTTAAATTAATGAAAAATAGAAATAGAGAATCTAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCa                            <  1:594776/141‑1 (MQ=255)
                                                                                                               tATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCaaa                          >  2:319076/1‑141 (MQ=255)
                                                                                                               tATGATTTTTAATTACTATACTAAAAAT‑AAAAAATATACATCAGAAGTTTAAATTAAGTAAAACTATGATTAGAGTATATATTAAACAAAAAGGAATTTCTCAAGAATCGTTAAGTAAAGAATTAAAAGTGTCTAGGCaaa                          <  2:237368/141‑1 (MQ=255)
                                                                                                                 tGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACt                        <  2:567549/141‑1 (MQ=255)
                                                                                                                 tGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACt                        >  1:223067/1‑141 (MQ=255)
                                                                                                                   cTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTAt                      <  2:541526/141‑1 (MQ=255)
                                                                                                                       ttAATAACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATAAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAAt                  <  1:577531/141‑1 (MQ=255)
                                                                                                                         aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                <  1:24159/141‑1 (MQ=255)
                                                                                                                         aaTTACTATACAACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                <  1:199349/141‑1 (MQ=255)
                                                                                                                           ttACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCaa              >  2:644975/1‑141 (MQ=255)
                                                                                                                            tactatactaCAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAAt             >  1:566203/1‑141 (MQ=255)
                                                                                                                             actatactaCAAAT‑AAAAAATATACATCTCAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATa            >  2:411427/1‑141 (MQ=255)
                                                                                                                                  actacAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGaaaa       <  1:118872/141‑1 (MQ=255)
                                                                                                                                    tacAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACa     <  2:474436/141‑1 (MQ=255)
                                                                                                                                       aaaTAAAAAAA‑ATACATCCAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACaata  <  1:164987/141‑1 (MQ=255)
                                                                                                                                        aaaaaaaaaaTATAAATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACaata  <  2:623133/138‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                         
TTGTATGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACAATA  >  CP000731/25524‑25800

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: ‑

GATK/CNVnator alignment

N/A