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
A13 F20 I0 R1 89 60.0 1338914 94.3% 1262595 140.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,929,875 T→C 58.1% 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
*CP0007301,929,8750TC58.1% 82.6 / 131.6 134intergenic (‑958/‑210)USA300HOU_1794/USA300HOU_1796hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (28/28);  new base C (45/31);  total (75/59)
Fisher's exact test for biased strand distribution p-value = 3.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 136 total aligned reads displayed.

AATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGG  >  CP000730/1929739‑1930015
                                                                                                                                            |                                                                                                                                            
aaTCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTAttt                                                                                                                                          <  2:55256/141‑1 (MQ=255)
 aTCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGGGGAGGTGTA‑TAA‑G‑GG‑GGTGCTTGtttt                                                                                                                                         >  1:67697/1‑141 (MQ=255)
 aTCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTAtttt                                                                                                                                         >  1:617662/1‑141 (MQ=255)
             gAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCAcatcat                                                                                                                             >  2:589440/1‑141 (MQ=255)
              aaTCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGCTAAAAGATTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATa                                                                                                                            <  1:625249/141‑1 (MQ=255)
              aaTCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATa                                                                                                                            <  1:40471/141‑1 (MQ=255)
               aTCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAg                                                                                                                           >  1:104477/1‑141 (MQ=255)
                    ataACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCAATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCa                                                                                                                      >  1:456894/1‑141 (MQ=255)
                       aCTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCTGtc                                                                                                                   >  2:546668/1‑141 (MQ=255)
                             cAGAAGCAAGTGACTGTGCTTGTTCTTGAACCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGt                                                                                                             >  1:661663/1‑141 (MQ=255)
                             cAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGt                                                                                                             >  2:655242/1‑141 (MQ=255)
                              aGAAGCAAGTGACTGTGTTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTg                                                                                                            <  1:501325/141‑1 (MQ=255)
                              aGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTGGTTCACATCATAGCACCAGGAATCAGTg                                                                                                            >  1:255828/1‑141 (MQ=255)
                                tcggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCt                                                                                                         >  1:443158/14‑141 (MQ=255)
                                  ggaagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgt                                                                                                       >  1:168329/12‑141 (MQ=255)
                                  gCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACGTAATAGCAGCAGTCATCAGTGGCtg                                                                                                        >  2:189474/1‑141 (MQ=255)
                                  gCAAGTGACTGTGCTTGTATATTTACCGATGATATAATAGTAGAGTCGCCTATCTCGCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtg                                                                                                        >  2:490596/1‑141 (MQ=255)
                                    aagtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGc                                                                                                     <  1:442291/132‑1 (MQ=255)
                                    aaGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCtgtg                                                                                                      >  1:291877/1‑141 (MQ=255)
                                     agtagatattcTTCTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct                                                                                                    <  2:500018/131‑2 (MQ=255)
                                     agtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct                                                                                                    <  2:618990/133‑2 (MQ=255)
                                     agtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTGTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGct                                                                                                    <  1:430107/133‑2 (MQ=255)
                                      gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg                                                                                                   <  1:543834/134‑3 (MQ=255)
                                      gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg                                                                                                   >  1:45839/8‑139 (MQ=255)
                                      gtagatatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGGCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctg                                                                                                   <  1:170476/134‑3 (MQ=255)
                                          atatgagtGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGctgttgc                                                                                               <  1:71702/134‑7 (MQ=255)
                                           tatgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCGGTGGCTGTGCTGTTGCg                                                                                              >  1:117086/3‑141 (MQ=255)
                                            ttgCTTGTATAGTTGCCGATGATATAATAGTAGCGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCg                                                                                              <  2:101255/140‑1 (MQ=255)
                                            atgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGt                                                                                             <  2:516675/140‑1 (MQ=255)
                                             tgCTTGTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGta                                                                                            >  1:32426/1‑140 (MQ=255)
                                                ttGTATATTCACAGATGGGATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCCGTCATCAGTGGCTGTGCTGTTGCGtatta                                                                                         <  1:594485/141‑2 (MQ=255)
                                                  gTATATTCACAGATGGTATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATAATAGCACCAGTCATCAGTGGCCGTGCTGTTGCGtattata                                                                                       >  2:374439/1‑138 (MQ=255)
                                                   tatattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtgttatac                                                                                      >  1:187644/11‑137 (MQ=255)
                                                   tatattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattatat                                                                                      >  2:605751/11‑137 (MQ=255)
                                                   tatattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑C‑TTGGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattatac                                                                                      >  1:451585/11‑137 (MQ=255)
                                                   tataTTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATTCTTATCTTCGTTCGCATCATAGCACCAGTCATCAGTGCCTGTGCCATTGCGttttttt                                                                                       <  1:407313/141‑1 (MQ=255)
                                                    atattcacagatggtATAATAATAGAGTCGCGTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGAGCATTAC‑T‑TT‑GCTAATCATTTTCGTACACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGtattatact                                                                                     >  1:491760/10‑136 (MQ=255)
                                                      tatcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTa                                                                                   >  2:337992/8‑141 (MQ=255)
                                                      attcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTa                                                                                   >  2:121783/8‑141 (MQ=255)
                                                          acagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGCGGAGGTGCATTAC‑T‑TT‑GCTAGTCCTTGTCGCTCACATCAGAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTgg                                                                               >  2:640275/4‑141 (MQ=255)
                                                           cagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                              <  2:591541/139‑1 (MQ=255)
                                                           cagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc                                                                              >  1:9688/3‑141 (MQ=255)
                                                            cGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTgtt                                                                              >  2:606001/1‑139 (MQ=255)
                                                            cGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc                                                                              <  2:40546/141‑1 (MQ=255)
                                                               tggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAg                                                                          >  1:183012/4‑141 (MQ=255)
                                                                ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTCCGTATTGTACTTCTTGGCTTAgg                                                                         >  2:2184/3‑140 (MQ=255)
                                                                ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt                                                                         >  2:621136/3‑141 (MQ=255)
                                                                ggtacaatgttagAGTCGCCTATCTCCTAGGCGGCACTT‑‑GCCGAAGAGAGGAGGTGCATTCC‑T‑TT‑GCTAGTCATTTCCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt                                                                         <  2:112381/131‑1 (MQ=255)
                                                                 gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGCTCACCTCAAAACACCTGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTa                                                                        >  1:126114/2‑141 (MQ=255)
                                                                 atatAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGt                                                                         >  2:647888/1‑141 (MQ=255)
                                                                   ctaataaGAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                      <  1:533308/140‑3 (MQ=255)
                                                                   ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                      >  1:328466/1‑139 (MQ=255)
                                                                   ataataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTA‑CTTT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTaaa                                                                      >  1:145633/1‑139 (MQ=255)
                                                                    taataaTAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAAGCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATAATTATTGGCttggtaaac                                                                     >  1:91844/1‑133 (MQ=255)
                                                                     aataatACAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACg                                                                    <  2:430551/141‑1 (MQ=255)
                                                                      ataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTacctcgacc                                                                    >  2:429641/1‑133 (MQ=255)
                                                                       taatagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATAATTTTCGTTCACATCATAGCAGCAGTCATCAAAGGATGTGCTGTTGCGTCTTATACTTATTGGCTTAGTAACCGCa                                                                  >  2:281208/4‑141 (MQ=255)
                                                                       aaatagAGGCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCa                                                                  <  2:581824/138‑1 (MQ=255)
                                                                          tagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaaca                                                               <  1:47562/141‑3 (MQ=255)
                                                                          tagAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaaca                                                               >  1:293777/1‑139 (MQ=255)
                                                                           agagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaa                                                              >  1:40321/1‑138 (MQ=255)
                                                                            gagTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATAc                                                              <  1:459516/141‑1 (MQ=255)
                                                                            gagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaa                                                             >  2:282973/1‑137 (MQ=255)
                                                                             agTCCCCTATCTCTCAGGCGTCAATTTATACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACa                                                             <  1:65601/141‑1 (MQ=255)
                                                                              gTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAACCGCaacaaata                                                           >  1:213076/1‑135 (MQ=255)
                                                                              gTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata                                                           >  2:430302/1‑135 (MQ=255)
                                                                                 gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt                                                        >  2:154913/1‑132 (MQ=255)
                                                                                 gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt                                                        <  1:464365/141‑10 (MQ=255)
                                                                                   cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCGGTCGTCATCGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa                                                      >  1:154206/1‑130 (MQ=255)
                                                                                   cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGGGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa                                                      <  2:45839/141‑12 (MQ=255)
                                                                                    tacccctcAGGCGTAAATTTAGACGCAGAGAGGAGGTGGA‑TAA‑G‑GT‑GAGGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAgg                                                      <  1:190978/136‑1 (MQ=255)
                                                                                    tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaaa                                                     >  2:269331/1‑129 (MQ=255)
                                                                                    tATCTCTCAGGCGTAAATT‑‑GACGAAGAGAGGAGGTGCA‑TAACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCCCCAGTCATCAGGGGCTGTGCTGTTGCGTATTATACTTATTGGCTGAGTAAACGCaacaaataattaat                                                     <  1:603319/141‑13 (MQ=255)
                                                                                     aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTACTCATTTTCTTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                    <  1:349945/141‑14 (MQ=255)
                                                                                     aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaatccatactc                                                    >  2:328789/1‑128 (MQ=255)
                                                                                     aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata                                                    >  1:377099/1‑128 (MQ=255)
                                                                                      tctctcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCCCATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGCCTAAGTAGCAGCCATACAACATAGGTg                                                    >  2:528254/1‑141 (MQ=255)
                                                                                      tctctcAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATTAC‑T‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTTGTAAACGCaacaaataattaatag                                                   <  1:426032/141‑15 (MQ=255)
                                                                                      tctctcAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TTACT‑TT‑GCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattcatag                                                   >  2:195512/1‑127 (MQ=255)
                                                                                         ctcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACa                                                 >  2:389607/1‑141 (MQ=255)
                                                                                         cccacgCGTCAATTTATCCGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCAGCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACa                                                 <  1:401522/136‑1 (MQ=255)
                                                                                           cAGGCGTCAATTTAGACGAAGAGAGGAGGTGTA‑GAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACata                                               <  2:33137/141‑1 (MQ=255)
                                                                                               cggcAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGc                                           <  2:463808/138‑1 (MQ=255)
                                                                                                     tttAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCAcc                                     <  1:425465/141‑1 (MQ=255)
                                                                                                     tttAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTCCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTATGTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCAcc                                     >  2:368015/1‑141 (MQ=255)
                                                                                                            gCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATaaaa                              >  2:659479/1‑141 (MQ=255)
                                                                                                            gCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTAACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTTTTGGCTAAGTAGACGGAATACATAATAGGTGACATATAGCCGCACCAATaaaa                              >  2:321984/1‑141 (MQ=255)
                                                                                                                  aggaggTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGACATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATcccc                        >  1:628334/1‑141 (MQ=255)
                                                                                                                      ggTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCAc                    <  1:589440/141‑1 (MQ=255)
                                                                                                                       gtgtA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACt                   >  1:231736/1‑141 (MQ=255)
                                                                                                                          ta‑taA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTAcc                >  1:281535/1‑141 (MQ=255)
                                                                                                                          ta‑taA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTAcc                >  1:620603/1‑141 (MQ=255)
                                                                                                                             taA‑G‑GT‑GATTCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGc              <  1:24990/141‑1 (MQ=255)
                                                                                                                             taA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGc              <  1:494761/141‑1 (MQ=255)
                                                                                                                                 g‑gT‑GAGTCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCaaa           <  2:232352/141‑1 (MQ=255)
                                                                                                                                      gATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAACATAGGAGTCATAGAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAg        <  1:293784/141‑1 (MQ=255)
                                                                                                                                      gATGCTCATTTTCGTTCACATCAGAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAg        <  1:2760/141‑1 (MQ=255)
                                                                                                                                        tGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTg      <  1:545648/141‑1 (MQ=255)
                                                                                                                                         gCTTATTTTCGTTGCAATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGa     <  1:2023/141‑1 (MQ=255)
                                                                                                                                            tATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAggg  >  2:220031/1‑141 (MQ=255)
                                                                                                                                            |                                                                                                                                            
AATCTATCAGCTAGAATCATATAACTTATCAGAAGCAAGTGACTGTGCTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑TAA‑G‑GT‑GATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGG  >  CP000730/1929739‑1930015

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A