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
A9 F110 I0 R1	50	71.1	1529928	95.4%	1459551	140.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,909,490:1	+T	100%	coding (297/303 nt)	USA300HOU_1771 →	hypothetical membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,909,486	1	.	T	68.6%	155.6 / 76.3	70	coding (293/303 nt)	USA300HOU_1771	hypothetical membrane protein
Reads supporting (aligned to +/- strand): ref base . (12/10); new base T (28/20); total (40/30)
Fisher's exact test for biased strand distribution p-value = 7.99e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch.

TTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACTATG  >  CP000730/1909346‑1909620

tttGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑gg                                                                                                                                           <  1:196133/141‑1 (MQ=255)

 ttGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCCGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑t                                                                                                                                         >  1:329821/1‑141 (MQ=255)

 ttGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGCTTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑t                                                                                                                                         >  2:458280/1‑141 (MQ=255)

 ttGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGGACATATCTTTTCAATTGTTCGTACATTC‑GG‑t                                                                                                                                         >  1:278805/1‑141 (MQ=255)

  tGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑tt                                                                                                                                        <  1:121378/141‑1 (MQ=255)

  tGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑tt                                                                                                                                        <  1:486156/141‑1 (MQ=255)

     cTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAGTTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑tt                                                                                                                                    >  2:54448/1‑140 (MQ=255)

     cTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑tt                                                                                                                                    >  1:35661/1‑140 (MQ=255)

     cTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑tt                                                                                                                                    <  1:604777/141‑2 (MQ=255)

     cTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑tt                                                                                                                                    >  2:599058/1‑140 (MQ=255)

      tataATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGTAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑tta                                                                                                                                   <  2:215105/141‑3 (MQ=255)

      tataATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTTTTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑tta                                                                                                                                   >  1:59089/1‑139 (MQ=255)

       ataATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑ttt‑ttat                                                                                                                                  >  2:379698/1‑138 (MQ=255)

          ttttttGCAGGTTGTTCAATTAAATCACTAAAGCCTGATGGAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTtt‑t‑attta                                                                                                                               <  2:373393/140‑1 (MQ=255)

          aTTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTtt‑t‑attta                                                                                                                               <  1:440064/141‑1 (MQ=255)

               tGCAGATCGTTCAATTAAATCACTGAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTaaaaaa                                                                                                                          >  1:554344/1‑141 (MQ=255)

               tGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTaaaaaa                                                                                                                          >  2:106863/1‑141 (MQ=255)

               tGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTaaaaaa                                                                                                                          >  2:322590/1‑141 (MQ=255)

                gCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACTTTC‑GGTTTT‑T‑ATTTAAAAAAg                                                                                                                         >  2:431648/1‑141 (MQ=255)

                gCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAg                                                                                                                         >  1:138342/1‑141 (MQ=255)

                 ccgATCGTTGAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTCTTG‑GTG‑T‑ATTTAAAAAAGt                                                                                                                        <  2:461248/139‑1 (MQ=255)

                   gATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCGTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTa                                                                                                                      >  1:587090/1‑141 (MQ=255)

                      cGTTCAATTAAATCACTAAAGCCTGATAAAGATTGGATTAGAATTGCGAGTAAAAGTTCGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTCTGT‑TTT‑T‑ATTTAAAAAAGTTAata                                                                                                                   >  2:183960/1‑141 (MQ=255)

                         tCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGt                                                                                                                >  1:3840/1‑141 (MQ=255)

                          cAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCa                                                                                                              >  2:545592/1‑141 (MQ=255)

                          cAATTAAATCACTAAAGCCTGATGCAGATTGCATTAGAATTGCGAGTAAAAGTTGGCCTTGGATTATTCTAATTGTTATTTTAGTACGTATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTCAAAAAGTGAatgtttt                                                                                                               >  2:294681/1‑136 (MQ=255)

                          aaaTTAAATCACTAAAGCCTGATGCAGATTAGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCa                                                                                                              <  1:27104/140‑1 (MQ=255)

                           aaTTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GA‑TTT‑T‑ATTTAAAAAAGTTAATATGTCAt                                                                                                             >  2:672148/1‑141 (MQ=255)

                               taaTCACTAAAGCCTGCTGGAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTTTAATTGTTATTTTAGTACATCTCTTTTCATTGGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGt                                                                                                          <  2:497327/140‑1 (MQ=255)

                                aaTCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTATTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGtg                                                                                                         >  1:533532/1‑140 (MQ=255)

                                   cACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGcc                                                                                                      <  1:375661/141‑1 (MQ=255)

                                    aCTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCTTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCtt                                                                                                    <  2:148390/141‑1 (MQ=255)

                                     cTAATGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAGAGTTAATATGTCATTGTAGCCtt                                                                                                    >  2:173631/1‑141 (MQ=255)

                                     cTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCtt                                                                                                    >  2:73908/1‑141 (MQ=255)

                                     cTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCtt                                                                                                    <  1:208412/141‑1 (MQ=255)

                                     cTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCtt                                                                                                    >  2:73905/1‑141 (MQ=255)

                                     cTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCtt                                                                                                    <  2:379332/141‑1 (MQ=255)

                                            cTGATGCAGATTGGATTAGAATTGCGAGTAAACGTTTGCCTTGGTTTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACaaa                                                                                            <  1:47403/141‑1 (MQ=255)

                                             tGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACaaa                                                                                            <  1:125541/141‑1 (MQ=255)

                                              gATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTGTTTGTAGCCTTAATACaaatc                                                                                          >  2:458601/1‑139 (MQ=255)

                                               aTGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAATAAAGTTAATATGTCATTGTAGCCTTAATACAAAac                                                                                          >  2:29503/1‑141 (MQ=255)

                                                 gCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAacaa                                                                                        >  1:253748/1‑141 (MQ=255)

                                                    gATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAacaataca                                                                                    >  1:260338/1‑141 (MQ=255)

                                                       tGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTGTTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAacaatacaat                                                                                  <  1:589978/141‑1 (MQ=255)

                                                          aTTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAACTGTTTGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTAt                                                                              >  1:567898/1‑141 (MQ=255)

                                                              gAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCAt                                                                           >  1:567750/1‑141 (MQ=255)

                                                                aTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACATTACAATGTATCATGc                                                                         <  1:566446/141‑1 (MQ=255)

                                                                aTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGc                                                                         <  1:27958/141‑1 (MQ=255)

                                                                aTTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGc                                                                         <  1:585238/141‑1 (MQ=255)

                                                                    cGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCtata                                                                     <  2:601031/141‑1 (MQ=255)

                                                                    cGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCtata                                                                     >  1:420823/1‑141 (MQ=255)

                                                                           aaGTTTGCCTTGGATTATTCTAATTGTTATTTTGTTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAATTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTa                                                              <  2:422866/141‑1 (MQ=255)

                                                                              tttGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTaaaa                                                           <  2:191682/141‑1 (MQ=255)

                                                                                   cTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAAtt                                                      >  2:20500/1‑141 (MQ=255)

                                                                                    ttGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAAAAAttg                                                     >  1:96695/1‑140 (MQ=255)

                                                                                           attCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACg                                              >  1:112575/1‑141 (MQ=255)

                                                                                             tCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACgttg                                           >  1:251042/1‑141 (MQ=255)

                                                                                             tCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTAGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATTATGCTATAATGAGTAAAACAATTTGATAAGgtt                                            >  2:308979/1‑141 (MQ=255)

                                                                                             tCTAATTGTTATTTTAGTACATATCTAATTAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTTATAACgtt                                            >  2:162329/1‑141 (MQ=255)

                                                                                                    tttATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGt                                     <  1:117123/140‑1 (MQ=255)

                                                                                                     ttATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGtat                                   >  1:406312/1‑141 (MQ=255)

                                                                                                       aTTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGtata                                  >  2:370803/1‑141 (MQ=255)

                                                                                                        ttttAGTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATaa                                 >  2:246528/1‑141 (MQ=255)

                                                                                                            aGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAat                            >  1:43042/1‑141 (MQ=255)

                                                                                                             gTACATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATaaaaaaa                            >  1:525632/1‑140 (MQ=255)

                                                                                                               aCATATCTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAatat                          <  1:196752/141‑1 (MQ=255)

                                                                                                               aCATATCTTGTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAatat                          <  1:196787/141‑1 (MQ=255)

                                                                                                                     cTTTTCAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGAtt                    >  1:691413/1‑141 (MQ=255)

                                                                                                                       tttCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGAtttac                 >  2:70994/1‑139 (MQ=255)

                                                                                                                          cAATTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGa               >  1:230860/1‑141 (MQ=255)

                                                                                                                           cattattCCTACATTC‑GG‑TTA‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAGCGTTGTTGCGTATAAAAAATTTTAGATTTTCGaaa             <  2:331975/140‑1 (MQ=255)

                                                                                                                           aaTTGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGaa              >  1:588000/1‑141 (MQ=255)

                                                                                                                           aaTTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGaaa             <  2:705484/141‑1 (MQ=255)

                                                                                                                           aaTTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGaaa             <  2:705496/141‑1 (MQ=255)

                                                                                                                            aTTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAAt            >  2:301502/1‑141 (MQ=255)

                                                                                                                            aTTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAAt            >  2:485930/1‑141 (MQ=255)

                                                                                                                             ttGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAAt            <  2:112575/141‑1 (MQ=255)

                                                                                                                             ttGTTCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTAGTTGCGTATAAAAAATATTAGATTTTCGAAAt            >  1:506366/1‑141 (MQ=255)

                                                                                                                               gTTCGTACATTC‑GG‑TTTCT‑ATTTAAAAAACTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCa          <  1:48904/141‑1 (MQ=255)

                                                                                                                               gTTCGTACATTC‑GG‑TTT‑TAATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCa          <  1:48950/141‑1 (MQ=255)

                                                                                                                                 tCGTACATTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATa        <  2:384205/141‑1 (MQ=255)

                                                                                                                                 tCGTACATTC‑GG‑TTA‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATaa       <  1:754232/141‑1 (MQ=255)

                                                                                                                                       aTTC‑GGTTTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACTATg  <  1:678526/141‑1 (MQ=255)

TTTGTCTATAATTTTTGCAGATCGTTCAATTAAATCACTAAAGCCTGATGCAGATTGGATTAGAATTGCGAGTAAAAGTTTGCCTTGGATTATTCTAATTGTTATTTTAGTACATATCTTTTCAATTGTTCGTACATTC‑GG‑TTT‑T‑ATTTAAAAAAGTTAATATGTCATTGTAGCCTTAATACAAAACAATACAATGTATCATGCTATAATGAGTAAAACAATTTGATAACGTTGTTGCGTATAAAAAATATTAGATTTTCGAAATCATAACTATG  >  CP000730/1909346‑1909620

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A