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 F15 I0 R1 78 60.3 1335882 93.5% 1249049 140.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,929,875 T→C 54.4% intergenic (‑958/‑210) USA300HOU_1794 ← / → USA300HOU_1796 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,929,8750TC54.4% 60.8 / 182.8 162intergenic (‑958/‑210)USA300HOU_1794/USA300HOU_1796hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (30/43);  new base C (47/39);  total (80/82)
Fisher's exact test for biased strand distribution p-value = 1.11e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.55e-01

Only 100 of 171 total aligned reads displayed.

TTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGG  >  CP000730/1929736‑1930014
                                                                                                                                                |                                                                                                                                           
ttCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCtt                                                                                                                                             >  2:116665/1‑140 (MQ=255)
ttCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCACCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCtt                                                                                                                                             >  2:180334/1‑140 (MQ=255)
  cAATCTATCAGCTAGCATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTAt                                                                                                                                           >  1:495638/1‑140 (MQ=255)
  cAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTAt                                                                                                                                           <  1:416060/140‑1 (MQ=255)
   aaTCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGCGTA‑TAC‑G‑G‑TGAT‑GCTTAtt                                                                                                                                          >  2:420496/1‑140 (MQ=255)
     tCTATCAGCTTGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTAtttt                                                                                                                                        <  1:239395/140‑1 (MQ=255)
       tATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCg                                                                                                                                      <  1:398272/140‑1 (MQ=255)
       tATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCg                                                                                                                                      <  1:327669/140‑1 (MQ=255)
                 aaTCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCAcatcat                                                                                                                            <  1:523940/140‑1 (MQ=255)
                     atatAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCa                                                                                                                        <  1:599815/140‑1 (MQ=255)
                         aaCTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAg                                                                                                                    <  2:232125/140‑1 (MQ=255)
                                cAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAg                                                                                                             >  1:642826/1‑140 (MQ=255)
                                 aGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTA‑TTTCGTTCACATCATAGCACCAGTCATCAGTg                                                                                                           <  2:561362/140‑1 (MQ=255)
                                  atcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAATCAACAGTgg                                                                                                          >  2:194350/15‑140 (MQ=255)
                                  atcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCAACAGTgg                                                                                                          <  2:592135/126‑1 (MQ=255)
                                  agcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTgg                                                                                                          <  2:186851/126‑1 (MQ=255)
                                   tcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATAATTTTCGTTCACATCATAGCACCAGTCATCAGTGGc                                                                                                         >  1:80227/14‑140 (MQ=255)
                                     ggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtg                                                                                                       >  1:609342/12‑140 (MQ=255)
                                      gaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGTGTTGACTAACTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCAGTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt                                                                                                      <  1:314332/130‑1 (MQ=255)
                                       aagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg                                                                                                     <  2:125944/131‑1 (MQ=255)
                                        agtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGc                                                                                                    <  1:512835/132‑1 (MQ=255)
                                        aGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg                                                                                                     >  2:506101/1‑140 (MQ=255)
                                        aGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCggtg                                                                                                     >  2:343325/1‑140 (MQ=255)
                                         gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct                                                                                                   <  2:654528/133‑2 (MQ=255)
                                          tagatatgCTTGTATATTTACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg                                                                                                  <  1:169529/134‑3 (MQ=255)
                                           agatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GTCGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgt                                                                                                 <  1:230962/135‑4 (MQ=255)
                                            gatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtgatgtt                                                                                                >  2:484475/5‑135 (MQ=255)
                                            gatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgtt                                                                                                <  1:246185/136‑5 (MQ=255)
                                            aCTGCGCTTCTATATTTGCCGATGATATAATAGTAGAGTCGCCTATTTCTCAGGCGTTAATTTAGACGTAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCAt                                                                                                 <  1:315532/140‑1 (MQ=255)
                                             atatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttg                                                                                               >  1:602345/4‑135 (MQ=255)
                                              tatgCTTGTATATTCACAGAGGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttgc                                                                                              <  2:267487/138‑7 (MQ=255)
                                               gtgCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTTTCGCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGc                                                                                              <  1:123323/140‑1 (MQ=255)
                                               atgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGAACCAGTCATCAGTGGCTGTGCTGTTGCg                                                                                             >  1:336112/2‑140 (MQ=255)
                                                   ttGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtatt                                                                                         <  1:500520/140‑4 (MQ=255)
                                                   ttGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtatt                                                                                         <  2:340199/140‑4 (MQ=255)
                                                    tGTATATTCACAAATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtatta                                                                                        <  1:59706/140‑5 (MQ=255)
                                                      tataTTTGCCGATGAAATAATAGGAGAGTTGCCTATCTCTCAGGCGTCAATTTAGTCGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCGGTGCCATTGCGtttttt                                                                                       <  1:261145/140‑1 (MQ=255)
                                                          ttcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTa                                                                                  >  1:444181/7‑140 (MQ=255)
                                                           tcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTT‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAt                                                                                 >  2:223806/6‑140 (MQ=255)
                                                           tcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TGACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAt                                                                                 <  2:226637/135‑1 (MQ=255)
                                                            cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGATGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAtt                                                                                >  1:297137/5‑140 (MQ=255)
                                                            cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAtt                                                                                >  2:250494/5‑140 (MQ=255)
                                                              ccGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTg                                                                               >  2:156940/1‑140 (MQ=255)
                                                               agatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                             <  2:36775/139‑1 (MQ=255)
                                                               agatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TTTGCT‑AATCAATTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                             <  2:383188/139‑1 (MQ=255)
                                                                gatgatATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCTCCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc                                                                             <  2:113652/140‑1 (MQ=255)
                                                                gatgatATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc                                                                             <  1:437332/140‑1 (MQ=255)
                                                                gatgatATAATAGTAAAGTCGCCTATCTCTCAGGCGTCAATTTATACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc                                                                             <  1:110705/140‑1 (MQ=255)
                                                                  tgatATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCtg                                                                           <  2:576950/140‑2 (MQ=255)
                                                                   ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCttag                                                                         <  1:426444/138‑4 (MQ=255)
                                                                    gttaaataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCCTAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt                                                                        <  2:332591/136‑1 (MQ=255)
                                                                     tataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTa                                                                       >  2:558378/1‑140 (MQ=255)
                                                                      ttaataGTAGAGCCGCTGATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTa                                                                       >  2:146383/2‑140 (MQ=255)
                                                                      cgatctatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTGACATCATAGCACCAGTCATCAGTGGCGGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                      >  2:6591/8‑139 (MQ=255)
                                                                      ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCCGTGGCTGTGCTGTTGCGTATTATACTTCTTGGcggagaat                                                                      >  2:135965/1‑133 (MQ=255)
                                                                      ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaa                                                                      >  1:374131/1‑139 (MQ=255)
                                                                       taataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATAATAGCACCAGTTATCAGTGGCTGTGCCAATGCATTTTTTTCTTATTGGCTAAGTAg                                                                      <  1:28062/140‑1 (MQ=255)
                                                                        aataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaac                                                                    <  1:540592/140‑4 (MQ=255)
                                                                        aataatAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAAc                                                                    >  1:667840/1‑140 (MQ=255)
                                                                         ataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCT‑TTA‑G‑T‑TCTTAAAGCAATTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACg                                                                   <  1:154182/140‑1 (MQ=255)
                                                                         ataCTAGAGTAGCCTATCTCTCAGGCAAAAATT‑‑GAAGAAGAGAGGAGGTGAATTAA‑T‑T‑TGAA‑AAGCATTTTCAGTTGCATCAGATCACCAGTCATCAGTGGCTGTGGTGTTGCGTATGATACTTATTGGCTTAGTAAACg                                                                   <  2:657606/140‑1 (MQ=255)
                                                                           agtagAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTACTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGc                                                                  <  1:116665/140‑1 (MQ=255)
                                                                            atagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGACGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaa                                                                >  2:433154/2‑140 (MQ=255)
                                                                                agacGCCTATCTCTCAGGCGACAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaa                                                            <  1:179096/137‑5 (MQ=255)
                                                                                 gTCGCCTATATCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaat                                                           >  2:251746/1‑135 (MQ=255)
                                                                                  tCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACaa                                                           >  1:284975/1‑140 (MQ=255)
                                                                                  tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑TCTCAATTGCCGCCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata                                                          <  1:484475/140‑7 (MQ=255)
                                                                                  tCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata                                                          >  2:540239/1‑134 (MQ=255)
                                                                                    gCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGTCTTTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACTCAATACaaaa                                                         >  1:467819/1‑140 (MQ=255)
                                                                                    gCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACaaaa                                                         <  2:177297/140‑1 (MQ=255)
                                                                                    gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATAATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataat                                                        >  1:186500/1‑132 (MQ=255)
                                                                                     ccTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTCTTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCATATTGGCTAAGTAGACGCAATACAAAAt                                                        >  1:264990/1‑140 (MQ=255)
                                                                                     ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt                                                       >  1:30862/1‑131 (MQ=255)
                                                                                      cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta                                                      >  2:100951/1‑130 (MQ=255)
                                                                                      cTAGCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCCGTCGATGTGCTGTTGCGTATTATACGTATTGGCTTAGTAAACGCaacaaataatta                                                      <  2:304254/140‑11 (MQ=255)
                                                                                       tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTCC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGATGTGCTGTTGCGTATTATACTTATTAGCTTAGTAAACACaacaagtaattta                                                     >  1:649359/1‑129 (MQ=255)
                                                                                       tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCCGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa                                                     >  1:418785/1‑129 (MQ=255)
                                                                                       tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa                                                     >  1:307337/1‑129 (MQ=255)
                                                                                        aTCTCTCAGTCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑C‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaat                                                    <  2:532574/140‑13 (MQ=255)
                                                                                        aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattact                                                    >  2:624595/1‑128 (MQ=255)
                                                                                          ctctcAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑T‑TGCT‑AATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaatag                                                  >  2:607649/1‑126 (MQ=255)
                                                                                                      aaTTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGc                                       >  2:298503/1‑140 (MQ=255)
                                                                                                       aattgacgcctgagagGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCa                                      <  1:45457/129‑1 (MQ=255)
                                                                                                               gCAGATACGAGTTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATCGGCTAAGTCGCCGCAATACAAAATAGGTGACATATAGCCGCACCAATaaa                              <  1:657444/140‑1 (MQ=255)
                                                                                                                 agagagGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATaaaaa                            <  1:546191/140‑1 (MQ=255)
                                                                                                                  gagagGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGAACCAATAAAAAt                           >  1:373733/1‑140 (MQ=255)
                                                                                                                   agagGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATc                          >  1:442154/1‑140 (MQ=255)
                                                                                                                       gaggTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCt                      <  2:375683/140‑1 (MQ=255)
                                                                                                                          gtgtA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCAc                   >  1:556422/1‑140 (MQ=255)
                                                                                                                           tgtA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACt                  <  1:208517/140‑1 (MQ=255)
                                                                                                                            gtA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTa                 >  1:634105/1‑140 (MQ=255)
                                                                                                                            gtA‑TAA‑G‑G‑TGAT‑GCTTATTCTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGAAATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTa                 >  1:354392/1‑140 (MQ=255)
                                                                                                                                  a‑G‑G‑TGAT‑GCTTATTTTCTTTCACATCATAGCACCAGTCATCAGTGGCTGGGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAACCCCGGTCACAGATAGCCGCACCAATAAAAATCCCCTCACTACCGCa            <  2:607591/140‑1 (MQ=255)
                                                                                                                                      g‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCaaa          >  2:255216/1‑140 (MQ=255)
                                                                                                                                      g‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTACGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCaaa          >  1:17989/1‑140 (MQ=255)
                                                                                                                                          cacggctATTTTCGTTCACATCATAGCGCCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATa        <  2:666234/134‑1 (MQ=255)
                                                                                                                                               ttATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGCCATATAGCCGCACCAATACACAACCCCTCACTACCGCAAGTaacgcg   >  2:552250/1‑135 (MQ=255)
                                                                                                                                               ttATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATCGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATTAAAATCCCCTCACTACCACAAagagagag   >  2:424809/1‑140 (MQ=255)
                                                                                                                                                tATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGGTTTGTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAgg  >  1:457144/1‑140 (MQ=255)
                                                                                                                                                tATTTCCGTTCCTATTATAGCCCCAGTCATCAGTGGCTGTGCCATTTCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAgg  <  2:355065/140‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                           
TTCAATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑G‑TGAT‑GCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGG  >  CP000730/1929736‑1930014

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