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
A3 F121 I1 R1	14	130.3	2998436	96.1%	2881496	139.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000731	25,669	(A)_7→6	coding (322/333 nt)	USA300HOU_pUSA300HOUMR0031 →	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000731	25,663	0	A	.	97.9%	1978.9 / 23.2	428	coding (316/333 nt)	USA300HOU_pUSA300HOUMR0031	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (1/8); new base . (221/197); total (222/206)
Fisher's exact test for biased strand distribution p-value = 1.63e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 469 total aligned reads displayed.

ATTGTATGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACAATAAAT  >  CP000731/25523‑25803

 ttgtatGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaa                                                                                                                                             >  1:1015800/1‑141 (MQ=255)

   gtatGTTATTCACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaa                                                                                                                                           >  1:508786/1‑141 (MQ=255)

     atGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaa                                                                                                                                         <  3:376661/141‑1 (MQ=255)

      tGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaat                                                                                                                                        >  1:672020/1‑140 (MQ=255)

      tGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaat                                                                                                                                        >  1:310228/1‑140 (MQ=255)

        ttATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaatat                                                                                                                                      >  2:330833/1‑138 (MQ=255)

        ttATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaatat                                                                                                                                      <  1:228189/141‑4 (MQ=255)

         tATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCATAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATAATAAAAATaaaaaatata                                                                                                                                     <  2:801336/141‑5 (MQ=255)

            ttACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACAt                                                                                                                                 >  1:724364/1‑141 (MQ=255)

             tACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATc                                                                                                                                >  2:565133/1‑141 (MQ=255)

                acTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTaa                                                                                                                             <  1:373263/141‑1 (MQ=255)

                   aGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAgg                                                                                                                          <  3:82356/141‑1 (MQ=255)

                   aGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAgg                                                                                                                          <  1:824261/141‑1 (MQ=255)

                   aGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATAAAAAAAAT‑AAAAAATATACATCTAAAgg                                                                                                                          <  2:146025/141‑1 (MQ=255)

                    gTGCTTACATTTACATGTTTTGCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGt                                                                                                                         <  1:717127/141‑1 (MQ=255)

                    gTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGt                                                                                                                         <  1:392552/141‑1 (MQ=255)

                    gTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGt                                                                                                                         <  4:122181/141‑1 (MQ=255)

                    gTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGt                                                                                                                         <  1:118421/141‑1 (MQ=255)

                         tAAATTTACCGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAAt                                                                                                                    >  1:918627/1‑141 (MQ=255)

                           aaTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTa                                                                                                                  >  3:283103/1‑141 (MQ=255)

                           aaTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTa                                                                                                                  >  3:426506/1‑141 (MQ=255)

                           aaTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTa                                                                                                                  >  1:84021/1‑141 (MQ=255)

                            aTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTaa                                                                                                                 <  2:449346/141‑1 (MQ=255)

                              ttACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATg                                                                                                               <  2:929389/141‑1 (MQ=255)

                               tACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGa                                                                                                              <  2:441088/141‑1 (MQ=255)

                               tACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGa                                                                                                              <  1:571583/141‑1 (MQ=255)

                               tACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTCTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGa                                                                                                              <  1:62090/141‑1 (MQ=255)

                                aCAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGaa                                                                                                             >  2:990354/1‑141 (MQ=255)

                                aCAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGaa                                                                                                             >  3:22343/1‑141 (MQ=255)

                                    gTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAAt                                                                                                         <  2:122163/141‑1 (MQ=255)

                                    atttGTAAACAAGTAATTAAAGATCTTTATATTAAAAATATACAGAAATTTTATTTATAATTGTAGAACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAAATAATAAAAAAt                                                                                                         <  2:281026/140‑1 (MQ=255)

                                      ttGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAg                                                                                                       >  1:195535/1‑141 (MQ=255)

                                           aCCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTa                                                                                                  <  1:975715/141‑1 (MQ=255)

                                           aCCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTa                                                                                                  <  2:775465/141‑1 (MQ=255)

                                             cAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTaga                                                                                                >  1:954361/1‑141 (MQ=255)

                                                    tGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                         <  1:2768/141‑1 (MQ=255)

                                                       aGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGaa                                                                                      >  3:301689/1‑141 (MQ=255)

                                                             ttGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaa                                                                                >  3:201108/1‑141 (MQ=255)

                                                              tagTTTTCTCAATAAACAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAA‑AAAAAAATATACAACTAAAGGTTAATTTAATGAAAAATAGAATTATTGAATATAGAAAACaaaa                                                                               <  4:301914/139‑1 (MQ=255)

                                                              tGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaaa                                                                               >  2:180828/1‑141 (MQ=255)

                                                               ggTTTACTCAATAACCAGAAATTATCTTTATAATCGTAGCACTCTTTCTTATGCTGTTTATTTACTATACTACAAAT‑ACAAAATATACATCTAAAGTTTAAATTAATAAAAAATAGAATTAGAGAATATAGAAAACaaaaa                                                                              >  2:422650/1‑141 (MQ=255)

                                                               ggTTGTCTCAATATCCAGAAATTTTCTTTGTAATTGTGGCAATATTGCTTTTGATGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAGAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaaaa                                                                              <  4:197399/141‑1 (MQ=255)

                                                                 ttttCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAgg                                                                            <  4:292065/141‑1 (MQ=255)

                                                                  tttCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGa                                                                           >  4:250420/1‑141 (MQ=255)

                                                                  tttCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGa                                                                           <  1:353248/141‑1 (MQ=255)

                                                                   ttCTTAATATCCAGAAATTTTCGTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGaa                                                                          <  2:161827/141‑1 (MQ=255)

                                                                    tctcAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAt                                                                         >  2:523303/1‑141 (MQ=255)

                                                                    tctaAATATACAGAAATTTTCTTTAAAATTGTAGAACTATTTCTTATGCTGTTTAATTAATATACTACAAAT‑AAAAAATATACATCTAAAGGAAAAATTAATGAAAAATAGAATTAGAAAAAAAAAAAAACAAAAAGGAAt                                                                         <  2:359169/141‑1 (MQ=255)

                                                                     ctcAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAtt                                                                        >  2:549892/1‑141 (MQ=255)

                                                                     ctcAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAtt                                                                        >  4:6366/1‑141 (MQ=255)

                                                                       cAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtc                                                                      <  3:347645/141‑1 (MQ=255)

                                                                        aaTATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtct                                                                     >  2:248203/1‑141 (MQ=255)

                                                                         atatCCAGAAATTGAATAAATAATAGTAGAACTATTTCTTATGCTGTTTAATTACAATACTAAAAAT‑AAAAAATATACATCTAAAGGTTAAAGTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtctc                                                                    <  2:622831/141‑1 (MQ=255)

                                                                          tatCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCa                                                                   >  3:177995/1‑141 (MQ=255)

                                                                          tatCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCa                                                                   <  1:330833/141‑1 (MQ=255)

                                                                            tCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATAATAAAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAg                                                                 <  4:346919/141‑1 (MQ=255)

                                                                             ccAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATAAAGAAAACAAAAAGGAATTTCTCAAGa                                                                <  2:910154/141‑1 (MQ=255)

                                                                                gAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAAc                                                             >  1:872682/1‑141 (MQ=255)

                                                                                 aaaTTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACt                                                            <  1:646944/141‑1 (MQ=255)

                                                                                  aaTTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACtt                                                           >  2:1002437/1‑141 (MQ=255)

                                                                                    ttttCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGTAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTa                                                         <  1:532472/141‑1 (MQ=255)

                                                                                     tttatttaTAATTGTAGAACTATTTCTTATGATGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAAAAAAAAAAAAAAAAGGAATTTCTCAAGAAACTTTaa                                                        <  2:505358/141‑1 (MQ=255)

                                                                                     tttCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTaa                                                        <  3:266894/141‑1 (MQ=255)

                                                                                         tttATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAA‑ATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTaa                                                    <  1:494355/141‑1 (MQ=255)

                                                                                          ttATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATCTCGACAACAAAAAGGAATTTCTCAAGAAACTTTAAGTaaa                                                   <  1:556706/141‑1 (MQ=255)

                                                                                          ttATAATTGTAGCAATATTTCTTATGATGTTTAATTACTATACTACAAAT‑TAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATAAAGAAAAAAAAAAGGAATTTCTCAAGAAACTTTAAGTaaa                                                   <  4:386008/141‑1 (MQ=255)

                                                                                            ataATTGTAGCACTATTTCTTATGCTGTTTAATTACTATGCTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGa                                                 <  1:772312/141‑1 (MQ=255)

                                                                                            ataATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGa                                                 <  3:397456/141‑1 (MQ=255)

                                                                                                  ttAGCACTATTTCTTATTCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaa                                           <  2:592240/140‑1 (MQ=255)

                                                                                                  gTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaa                                           <  3:121108/141‑1 (MQ=255)

                                                                                                   tAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaaa                                          >  1:544123/1‑141 (MQ=255)

                                                                                                   tAGAACTATTTCTTATGCTGTTTAATTACTATAATACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAAAAAAAAAAAAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaaa                                          <  2:692786/141‑1 (MQ=255)

                                                                                                    aGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAg                                         >  1:16087/1‑141 (MQ=255)

                                                                                                     gCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAgt                                        >  2:968761/1‑141 (MQ=255)

                                                                                                        cTATTTCATATGCTGTTTAAGTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTc                                     <  3:319641/141‑1 (MQ=255)

                                                                                                          aTTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTACAGGTTAACTTAATGAAAAATAGAATTAGAGAACATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTa                                   <  1:260801/141‑1 (MQ=255)

                                                                                                           tttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAg                                  >  3:444425/1‑141 (MQ=255)

                                                                                                            ttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAgg                                 >  2:40205/1‑141 (MQ=255)

                                                                                                              cTTATGCTGTTTAATTAATATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCa                               <  4:418759/141‑1 (MQ=255)

                                                                                                                 aTGCTGTTTAATAACTAAACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAAc                            <  4:322708/141‑1 (MQ=255)

                                                                                                                  tGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACt                           >  2:877535/1‑141 (MQ=255)

                                                                                                                    ttGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTAt                         <  1:148744/140‑1 (MQ=255)

                                                                                                                    cTGTTTAATTACGATACGACAAAT‑AAAAAATATACAGCAAAAGGTAAAAAGAATGAAAAATAGAATTAGAGAAGATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTAt                         <  1:46244/141‑1 (MQ=255)

                                                                                                                     tGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATAAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTAtt                        <  3:235714/141‑1 (MQ=255)

                                                                                                                        ttAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAAt                     >  1:420935/1‑141 (MQ=255)

                                                                                                                         tAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATg                    >  2:216275/1‑141 (MQ=255)

                                                                                                                         tAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATg                    <  1:745932/141‑1 (MQ=255)

                                                                                                                          aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                   >  4:141555/1‑141 (MQ=255)

                                                                                                                          aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                   <  4:279194/141‑1 (MQ=255)

                                                                                                                          aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                   >  1:598200/1‑141 (MQ=255)

                                                                                                                          aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                   <  2:1034262/141‑1 (MQ=255)

                                                                                                                          aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGc                   >  2:664922/1‑141 (MQ=255)

                                                                                                                            ttACTATACTACAAAT‑AAAAACTATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATATCTCAAGAAACTTTAAGTAAAAAATTAAAAGTGTCTAGGCAAACTATTAATGCaa                 >  2:752463/1‑141 (MQ=255)

                                                                                                                            ttACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCaa                 >  3:60301/1‑141 (MQ=255)

                                                                                                                             tactatactaCAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAAt                >  4:47491/1‑141 (MQ=255)

                                                                                                                             tactatactaCAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAAt                >  2:473432/1‑141 (MQ=255)

                                                                                                                              actataataCAAA‑AAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATa               <  2:638564/141‑1 (MQ=255)

                                                                                                                                  tactacAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGaaa           <  2:313837/141‑1 (MQ=255)

                                                                                                                                   actacAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGaaaa          >  4:43811/1‑141 (MQ=255)

                                                                                                                                       cAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACt                                                            <  3:410190/87‑1 (MQ=255)

ATTGTATGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACAATAAAT  >  CP000731/25523‑25803

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A