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
A7 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,664,363	(G)_6→7	coding (256/729 nt)	gadW ←	transcriptional activator of gadA and gadBC, repressor of gadX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,664,357	1	.	G	94.8%	258.9 / 4.9	77	coding (262/729 nt)	gadW	transcriptional activator of gadA and gadBC, repressor of gadX
Reads supporting (aligned to +/- strand): ref base . (1/3); new base G (40/33); total (41/36)
Fisher's exact test for biased strand distribution p-value = 3.35e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.02e-01

TATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑GGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTAT  >  NC_000913/3664222‑3664479

tATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑ggg                                                                                                                         <  1:999598/139‑1 (MQ=255)

tATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑ggg                                                                                                                         >  1:581561/1‑139 (MQ=255)

 aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGTTAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggg                                                                                                                        >  1:1142268/1‑139 (MQ=255)

 aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAt                                                                                                                             >  2:1439583/1‑135 (MQ=255)

 aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAt                                                                                                                             <  1:1439583/135‑1 (MQ=255)

 aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggg                                                                                                                        >  2:1326395/1‑139 (MQ=255)

 aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAA‑gggg                                                                                                                        >  1:334872/1‑139 (MQ=255)

            aGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGATTTTACCCCGGATTCATTGAAGCTATCAAATATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGt                                                                                                              >  2:972995/1‑139 (MQ=255)

            aGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑ggg                                                                                                                         <  1:1287662/127‑1 (MQ=255)

            aGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑ggg                                                                                                                         >  2:1287662/1‑127 (MQ=255)

             ggggATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGtt                                                                                                             <  2:322109/139‑1 (MQ=255)

                   cAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGttaattaa                                                                                                       >  2:369693/1‑139 (MQ=255)

                     gTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑GGGGGGTGACTGGTTAATTAACaa                                                                                                    <  2:581561/139‑1 (MQ=255)

                      ttctttctTATGAGAAACCATCGATAAACAGGAAAGGTAGAGCATATGACTCAGTATCCGTGCATTTACCCCGTATTCATTGAAGTTACCAAAAATCGCCGCCACCAGAGGGCTG‑GGGGGGTGACTGGTTAATTAaaaa                                                                                                    <  1:788594/139‑1 (MQ=255)

                      ttctttctTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    >  1:14009/1‑139 (MQ=255)

                           tcttATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGt                                                                                               <  2:850416/139‑1 (MQ=255)

                                taagaAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                          >  1:139774/3‑139 (MQ=255)

                                   gaAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAt                                                                                                                             >  2:474406/1‑101 (MQ=255)

                                   gaAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAt                                                                                                                             <  1:474406/101‑1 (MQ=255)

                                     aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGATTTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                     <  1:972995/139‑1 (MQ=255)

                                     aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                     <  2:1142268/139‑1 (MQ=255)

                                     aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                     <  1:369693/139‑1 (MQ=255)

                                     aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                     <  1:1326395/139‑1 (MQ=255)

                                     aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggt                                                                                                                    <  2:471310/107‑3 (MQ=255)

                                     aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggt                                                                                                                    >  1:471310/1‑105 (MQ=255)

                                            gATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑GGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTa                                                                             >  1:711334/1‑139 (MQ=255)

                                             aTAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                          >  2:854730/1‑126 (MQ=255)

                                             aTAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                          <  1:854730/126‑1 (MQ=255)

                                                 aCAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGt                                                                                                              >  2:482345/1‑102 (MQ=255)

                                                 aCAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGt                                                                                                              <  1:482345/102‑1 (MQ=255)

                                                   aGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGc                                                                       >  1:265377/1‑139 (MQ=255)

                                                         ggTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑GGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAg                                                                <  2:711334/139‑1 (MQ=255)

                                                            agagCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTTACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTGGCTGTGTAACCCTAAATTGCGTGGTAGCt                                                              <  2:1078011/139‑1 (MQ=255)

                                                             gagCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTg                                                             >  1:21672/1‑139 (MQ=255)

                                                             gagCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggtg                                                                                                                   >  1:1507/1‑81 (MQ=255)

                                                             gagCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggtg                                                                                                                   <  2:1507/84‑4 (MQ=255)

                                                               gCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGAc                                                           >  1:1109823/1‑139 (MQ=255)

                                                               gCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGAc                                                           >  1:1243383/1‑139 (MQ=255)

                                                                   atTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    <  1:1136931/94‑1 (MQ=255)

                                                                   atTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    >  2:1136931/1‑94 (MQ=255)

                                                                   atTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAat                                                       >  1:659388/1‑139 (MQ=255)

                                                                    ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    >  1:1432950/1‑93 (MQ=255)

                                                                    ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    <  2:1432950/93‑1 (MQ=255)

                                                                    ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                          <  2:1518541/103‑1 (MQ=255)

                                                                    ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                          >  1:1518541/1‑103 (MQ=255)

                                                                            tATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTgt                                                >  2:1471467/1‑137 (MQ=255)

                                                                            tATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTgt                                                <  1:1471467/137‑1 (MQ=255)

                                                                            tATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggt                                                                                                                    >  2:397289/1‑66 (MQ=255)

                                                                            tATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggt                                                                                                                    <  1:397289/68‑3 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAt                                                                                                                             >  1:152798/1‑55 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAt                                                                                                                             <  2:152798/55‑1 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                     <  2:1259873/95‑1 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                     >  1:1259873/1‑95 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAg                                                                <  2:143101/116‑1 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAg                                                                >  1:143101/1‑116 (MQ=255)

                                                                                 gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAAt                                         >  2:773716/1‑139 (MQ=255)

                                                                                      tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    >  1:714747/1‑75 (MQ=255)

                                                                                      tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACaa                                                                                                    <  2:714747/75‑1 (MQ=255)

                                                                                      tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCaa                                    >  2:634846/1‑139 (MQ=255)

                                                                                      tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCa                                     <  1:861179/138‑1 (MQ=255)

                                                                                      tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCa                                     >  2:861179/1‑138 (MQ=255)

                                                                                         aCCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACt                                 <  2:14009/139‑1 (MQ=255)

                                                                                          ccccGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTg                                >  2:366723/1‑139 (MQ=255)

                                                                                           cccGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGt                               <  1:773716/139‑1 (MQ=255)

                                                                                           cccGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGt                               <  1:1372923/139‑1 (MQ=255)

                                                                                            ccGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGc                                      >  1:106688/1‑131 (MQ=255)

                                                                                            ccGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGc                                      <  2:106688/131‑1 (MQ=255)

                                                                                               gATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCt                                                                                             >  2:1416771/1‑73 (MQ=255)

                                                                                               gATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCt                                                                                             <  1:1416771/73‑1 (MQ=255)

                                                                                                aTTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCt                          <  2:139774/139‑1 (MQ=255)

                                                                                                aTTCATTGAAGCTATCAAAAATCACCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCt                          >  2:530814/1‑139 (MQ=255)

                                                                                                   cATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCAt                       >  2:482040/1‑139 (MQ=255)

                                                                                                    aTTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGt                                                                     >  1:1061772/1‑92 (MQ=255)

                                                                                                    aTTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGt                                                                     <  2:1061772/92‑1 (MQ=255)

                                                                                                    aTTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATc                      >  2:1117507/1‑139 (MQ=255)

                                                                                                    aTTGAAGCTATCAAAAACCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGGTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATc                      >  1:922416/1‑139 (MQ=255)

                                                                                                         aGCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTTAATTGCGTGGTAGTCGCCGAATATTTAGTAAGTAATGGCAAACTGTCTCCTAATCAatat                 >  1:540015/1‑139 (MQ=255)

                                                                                                         aGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggtga                                                                                                                  <  2:445575/41‑5 (MQ=255)

                                                                                                         aGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑gggggggtga                                                                                                                  >  1:445575/1‑37 (MQ=255)

                                                                                                          gCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATc                >  2:606422/1‑139 (MQ=255)

                                                                                                          gCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATc                >  2:1289810/1‑139 (MQ=255)

                                                                                                          gCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATc                >  1:116584/1‑139 (MQ=255)

                                                                                                          gCTATCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATc                >  1:1331755/1‑139 (MQ=255)

                                                                                                              tCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCg                                                                      >  1:424913/1‑81 (MQ=255)

                                                                                                              tCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCg                                                                      <  2:424913/81‑1 (MQ=255)

                                                                                                              tCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTgtaagta                                           <  1:1497659/108‑1 (MQ=255)

                                                                                                              tCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTgtaagta                                           >  2:1497659/1‑108 (MQ=255)

                                                                                                              tCAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAgt            <  1:634846/139‑1 (MQ=255)

                                                                                                               cAAAAATCGCCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAgtc           <  2:41640/139‑1 (MQ=255)

                                                                                                               cAAAAATCACCGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAgtc           <  1:530814/139‑1 (MQ=255)

                                                                                                                        ccGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAg                            >  2:1510993/1‑113 (MQ=255)

                                                                                                                        ccGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAg                            <  1:1510993/113‑1 (MQ=255)

                                                                                                                        ccGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTAt  >  1:621031/1‑139 (MQ=255)

                                                                                                                        ccGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTAt  >  1:722790/1‑139 (MQ=255)

                                                                                                                        ccGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTAt  <  2:659388/139‑1 (MQ=255)

                                                                                                                        ccGTCACCAG‑CGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTAt  <  1:366723/139‑1 (MQ=255)

                                                                                                                                   cGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                          <  2:895072/41‑1 (MQ=255)

                                                                                                                                   cGGCATGGGGGGGTGACTAGTTAATTAACAAACGGTCTTTg                                                                                          >  1:895072/1‑41 (MQ=255)

TATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAG‑CGGCAT‑GGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTAT  >  NC_000913/3664222‑3664479

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A