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 I0 R1	45	69.8	1582072	96.2%	1521953	141.0

Breseq alignment

BRESEQ :: Evidence

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

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000731	25,663	0	A	.	96.1%	1318.5 / 20.1	298	coding (316/333 nt)	USA300HOU_pUSA300HOUMR0031	hypothetical protein
Reads supporting (aligned to +/- strand): ref base A (2/4); new base . (170/116); total (173/125)
Fisher's exact test for biased strand distribution p-value = 2.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

Only 100 of 322 total aligned reads displayed.

ATTGTATGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACAATAAAT  >  CP000731/25523‑25803

attgtatGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTCTAATTGTAGCAATATGTCTTATGCTGTTTAATTACTATACTACAAATa                                                                                                                                              >  2:553634/1‑141 (MQ=255)

attgtatGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATa                                                                                                                                              >  2:154224/1‑141 (MQ=255)

  tgtatGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTCTTTTGGAGATGT‑GCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaa                                                                                                                                            >  1:771618/1‑141 (MQ=255)

     ttGTTATTTACACTAGTGCTTAAATTGATAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaa                                                                                                                                         <  2:320327/140‑1 (MQ=255)

     aacttATTTCCACTAATGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaa                                                                                                                                         <  1:385270/138‑1 (MQ=255)

      tGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaat                                                                                                                                        >  2:305479/1‑140 (MQ=255)

      tGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCGGGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaat                                                                                                                                        >  2:678319/1‑140 (MQ=255)

        ttATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATaaaaaatat                                                                                                                                      >  1:327305/1‑138 (MQ=255)

         tATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAGTaaaaaatata                                                                                                                                     >  1:642516/1‑137 (MQ=255)

          aTTTACATTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATAc                                                                                                                                   <  1:196224/141‑1 (MQ=255)

           tttACACTAGTGCTTAAATTTACAGGTTAGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACa                                                                                                                                  >  2:92147/1‑141 (MQ=255)

            ttACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTGTTATACTGTGTAATCACAATACTACAAAT‑AAAAAATATACAt                                                                                                                                 >  1:694295/1‑141 (MQ=255)

             tcaacTAGTGCTTAAACTTACAGGTTTGTCACCAAGTATTGAAGGCACTGTGTTTTCTCCATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGGTTAATCACTATACTACAAAT‑AAAAAATATACATc                                                                                                                                <  2:365527/138‑1 (MQ=255)

                    gTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGt                                                                                                                         >  2:638411/1‑141 (MQ=255)

                     tGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAATTTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTATTTACAATACTACAAAT‑AAAAAATATACAACTAAAGCtt                                                                                                                        >  2:78500/1‑141 (MQ=255)

                      gCTTAAATTTACAGGTTTGTCACAAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATAAT‑TAAAAAAAAAAATATACATCTAAAGGTTa                                                                                                                       >  2:161447/1‑141 (MQ=255)

                       cTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTGACGGTTaa                                                                                                                      >  1:201416/1‑141 (MQ=255)

                       cTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTaa                                                                                                                      >  1:760833/1‑141 (MQ=255)

                        ttAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTAATATACTACAAAT‑AAAAAATATACATCTATAGGTTaaa                                                                                                                     >  2:138188/1‑141 (MQ=255)

                           aaTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTGAAGGTTAAATTa                                                                                                                  >  1:575482/1‑141 (MQ=255)

                            aTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTaa                                                                                                                 >  2:438308/1‑141 (MQ=255)

                            aTTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATAAATCTAAAGGTTAAATTaa                                                                                                                 >  2:286719/1‑141 (MQ=255)

                             tttACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAAt                                                                                                                >  2:430482/1‑141 (MQ=255)

                             tttACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAAt                                                                                                                >  1:63442/1‑141 (MQ=255)

                             tttACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAAt                                                                                                                >  2:397627/1‑141 (MQ=255)

                              ttACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATg                                                                                                               <  1:614704/141‑1 (MQ=255)

                              ttACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATg                                                                                                               >  1:34623/1‑141 (MQ=255)

                               tACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGa                                                                                                              <  2:473456/141‑1 (MQ=255)

                                aCAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGaa                                                                                                             >  1:780063/1‑141 (MQ=255)

                                aCAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGaa                                                                                                             >  1:549376/1‑141 (MQ=255)

                                 cAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTAATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACACCTAAAGGTTAAATTAATaaaa                                                                                                            >  2:370285/1‑141 (MQ=255)

                                  aGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGaaaa                                                                                                           <  1:208444/141‑1 (MQ=255)

                                    gTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAAt                                                                                                         <  2:707403/141‑1 (MQ=255)

                                    gTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACAGCTAAAGGTTAAATTAATGAAAAAt                                                                                                         >  2:216209/1‑141 (MQ=255)

                                      ttGTCATCAAAGATGTAAGGAACTTGCTTTTCTCCATAACCATAAACTTTT‑TTTATAACTGCAGCACTATTTCTTAATCTGTTTAATTACTAGACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAg                                                                                                       <  2:773765/141‑1 (MQ=255)

                                      ttGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTCGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATGAATGAAAAATAg                                                                                                       >  2:176650/1‑141 (MQ=255)

                                        gTCACCAAGTAATGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTAC‑TTTAACATTGTAGCCCAATTTCATATGCTGTCTAAACGATATACCAAAAAT‑AAGAAATATACATATAAAAGATAAATCAATCAAAAATAGaa                                                                                                     >  2:611929/1‑141 (MQ=255)

                                          cACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAAtt                                                                                                   >  1:560940/1‑141 (MQ=255)

                                              aaGTATTGAAGGATCTTGGCATTCTCAATATCCAGAAATTTTC‑TTTATAATTGTCGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATAGACATCTAAAGGTTAAATTAATGAAAAATAGAATTagag                                                                                               >  1:512495/1‑141 (MQ=255)

                                                gTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATAAAAAATAGAATTAGAGaa                                                                                             >  2:268072/1‑141 (MQ=255)

                                                   ttGTAGTATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAatat                                                                                          <  2:587406/141‑1 (MQ=255)

                                                    tGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATTCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                         <  1:532131/141‑1 (MQ=255)

                                                    tGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                         >  2:143616/1‑141 (MQ=255)

                                                    tGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAtata                                                                                         >  1:724312/1‑141 (MQ=255)

                                                      aaGGATCTTGGTTTTCTCAATATCCATAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGa                                                                                       <  1:688475/141‑1 (MQ=255)

                                                         gATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGaaaa                                                                                    >  2:102926/1‑141 (MQ=255)

                                                          aTCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAAc                                                                                   <  2:196503/141‑1 (MQ=255)

                                                             ttGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaa                                                                                <  2:692389/141‑1 (MQ=255)

                                                             ttGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaa                                                                                >  1:191038/1‑141 (MQ=255)

                                                              tGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGCTAACaaaa                                                                               >  2:751498/1‑141 (MQ=255)

                                                               ggTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACaaaaa                                                                              >  2:519770/1‑141 (MQ=255)

                                                                gTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAg                                                                             <  2:34623/141‑1 (MQ=255)

                                                                gTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAg                                                                             <  1:115567/141‑1 (MQ=255)

                                                                  tttCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGa                                                                           >  1:132609/1‑141 (MQ=255)

                                                                  tttCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGa                                                                           <  1:274627/141‑1 (MQ=255)

                                                                    tctcAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAt                                                                         >  1:316358/1‑141 (MQ=255)

                                                                     ctcAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAACGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAtt                                                                        >  2:404001/1‑141 (MQ=255)

                                                                      tcAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAttt                                                                       >  1:428513/1‑141 (MQ=255)

                                                                         atatCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtctc                                                                    <  2:110564/141‑1 (MQ=255)

                                                                         atatCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTtctc                                                                    <  2:460860/141‑1 (MQ=255)

                                                                            tCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTCCAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAAATTCTCAAg                                                                 >  1:154231/1‑141 (MQ=255)

                                                                            tCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAg                                                                 <  1:459956/141‑1 (MQ=255)

                                                                                 aaaTTATG‑TTTATAAATGTAGCACTATTTATTATGCTGATAAATCACTATAATACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAAAAAAAAAAAAAAAAAGGAATTTCTCAAGAAACt                                                            <  2:482924/141‑1 (MQ=255)

                                                                                    ttttC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTa                                                         <  1:63851/141‑1 (MQ=255)

                                                                                    ttttC‑TTTATAATTATAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTa                                                         <  2:385864/141‑1 (MQ=255)

                                                                                      ttC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATCTTGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAg                                                       >  1:320868/1‑141 (MQ=255)

                                                                                      ttC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAAATACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAg                                                       <  1:101719/141‑1 (MQ=255)

                                                                                       tC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAga                                                      >  1:434218/1‑140 (MQ=255)

                                                                                        c‑TTTATAATTGTAGGACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTa                                                     >  1:412157/1‑141 (MQ=255)

                                                                                         ttttATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACAACTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTa                                                     <  1:297959/140‑1 (MQ=255)

                                                                                          tttATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTaa                                                    >  1:5709/1‑141 (MQ=255)

                                                                                           ttATAATTGTAGCACTATTTCTTATGATGTTTAATTACTATACTACGAACCGAAAAA‑ATACATCAAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTaaa                                                   <  1:22511/141‑1 (MQ=255)

                                                                                             ataATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTCCAAAT‑AAAAAATATACATCTATAGGTTAAATTAATGAAAAATAAAATTAGAGAATATAGAAAACAAAAAGTAATTTCTCAAGAAACTTTAAGTAAAGa                                                 >  2:649977/1‑141 (MQ=255)

                                                                                              taATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGaa                                                <  1:751/141‑1 (MQ=255)

                                                                                                aTTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATCTCTCAAGAAACTTTAAGTAAAGAAtt                                              <  1:352532/141‑1 (MQ=255)

                                                                                                   gTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaa                                           >  1:252261/1‑141 (MQ=255)

                                                                                                   gTAACAATATTTCATATGCTGTATAATTACTATAATACAAAT‑ACAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATAAAAAAAAAAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTaaa                                           <  2:258968/141‑1 (MQ=255)

                                                                                                        aCTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAgtgt                                      >  1:681864/1‑141 (MQ=255)

                                                                                                         cTATTTCTTATGTTGTTTAATTACTAGAGTAGAAAT‑AAAAAAGATACATCTGAAGGTTAAAGGAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTGCTCAAGAAACGTTAAGTAAAGAATTAAAAGTGTc                                     <  1:161348/141‑1 (MQ=255)

                                                                                                         cTATTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTc                                     <  2:666411/141‑1 (MQ=255)

                                                                                                         cTATTTCTGATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAACTAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTACAAgtgtt                                     >  1:359893/1‑140 (MQ=255)

                                                                                                          tATTTCTTATGCTGTTAAATTAATATACTAAAAAT‑AAAAAATATACATCTAAAGGTAAAAAAAAAGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCt                                    <  2:12702/141‑1 (MQ=255)

                                                                                                           aTTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTa                                   >  2:2490/1‑141 (MQ=255)

                                                                                                           aTTTCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTa                                   >  2:81460/1‑141 (MQ=255)

                                                                                                            tttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAg                                  >  2:164447/1‑141 (MQ=255)

                                                                                                            tttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAg                                  <  1:85437/141‑1 (MQ=255)

                                                                                                            tttCTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAAGAATTTATCAAGAAACTTTAAGTAAACAATTAAAAAAGTCTAg                                  >  2:543037/1‑141 (MQ=255)

                                                                                                               tttATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAATTAAAGAATTAAAAGTGTCTAGGCa                               <  1:501776/140‑1 (MQ=255)

                                                                                                               cTTATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGAGTCTAGGCa                               >  2:219944/1‑141 (MQ=255)

                                                                                                                 tATGCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCaaa                             <  1:443326/141‑1 (MQ=255)

                                                                                                                  atggcgTTTAAATACTATAATACAAAT‑AAAAAATATACATCGAAAGGTTAAAGTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAAc                            <  2:124261/136‑1 (MQ=255)

                                                                                                                    gCTGTTTAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATGGAGTTAGAGAGGATAGGAAACGAAAACAGAATGCTGAAGAACCTTGGACTAAAGACTGAAAAAGGTGTAGTCaacaat                          >  1:552896/1‑137 (MQ=255)

                                                                                                                     cgttttAATTACTATACGAAAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATCTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTAt                         <  2:510266/138‑1 (MQ=255)

                                                                                                                        tttAATTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTaa                      <  1:180406/141‑1 (MQ=255)

                                                                                                                         ttAATTACAAAAATACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAAt                     <  2:453388/141‑1 (MQ=255)

                                                                                                                           aaTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAATGGTCTAGGCAAACTATTCATGc                   >  1:185229/1‑141 (MQ=255)

                                                                                                                            aTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCa                  >  1:649104/1‑141 (MQ=255)

                                                                                                                            aTTACTATACTACAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCa                  >  1:715351/1‑141 (MQ=255)

                                                                                                                                     atacAAAT‑AAAAAATAGACACCTAAACGTTAAATTAATTAAAAATAGAATTAGAGAATATAAAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAAc         <  1:238805/140‑1 (MQ=255)

                                                                                                                                        cAAAT‑AAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACaat      >  2:561064/1‑141 (MQ=255)

ATTGTATGTTATTTACACTAGTGCTTAAATTTACAGGTTTGTCACCAAGTATTGAAGGATCTTGGTTTTCTCAATATCCAGAAATTTTC‑TTTATAATTGTAGCACTATTTCTTATGCTGTTTAATTACTATACTACAAATAAAAAAATATACATCTAAAGGTTAAATTAATGAAAAATAGAATTAGAGAATATAGAAAACAAAAAGGAATTTCTCAAGAAACTTTAAGTAAAGAATTAAAAGTGTCTAGGCAAACTATTAATGCAATAGAAAACAATAAAT  >  CP000731/25523‑25803

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