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
A21 F63 I1 R1	22	62.8	1386043	93.6%	1297336	141.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	CP000730	293,940	C→T	intergenic (+57/‑471)	gatD → / → ispD2	zinc (Zn2+)‑binding dehydrogenase/2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	293,940	0	C	T	100.0%	166.9 / NA	53	intergenic (+57/‑471)	gatD/ispD2	zinc (Zn2+)‑binding dehydrogenase/2‑C‑methyl‑D‑erythritol 4‑phosphate cytidylyltransferase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (20/33); total (20/33)

TTAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCAATATTT  >  CP000730/293803‑294075

ttAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGt                                                                                                                                      <  1:440783/141‑1 (MQ=255)

ttAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGt                                                                                                                                      <  1:79155/141‑1 (MQ=255)

 tAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATgtcgtc                                                                                                                                     <  1:1282651/141‑1 (MQ=255)

 gaGAATACGGCCCGGAGACTTTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATgtcgtc                                                                                                                                     <  1:72457/140‑1 (MQ=255)

         ggCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGGCTGGTCtat                                                                                                                             >  1:1222048/1‑141 (MQ=255)

          gCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCtata                                                                                                                            >  1:1292850/1‑141 (MQ=255)

                   cATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATc                                                                                                                   >  1:92110/1‑141 (MQ=255)

                    ttttGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCg                                                                                                                  <  1:362761/140‑1 (MQ=255)

                    aTTTGATAAATTATTTAACAAGAAAGTACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCg                                                                                                                  <  1:362815/141‑1 (MQ=255)

                            aaTTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAAtt                                                                                                          <  1:820836/141‑1 (MQ=255)

                             aTTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTc                                                                                                         <  1:807932/141‑1 (MQ=255)

                              ttAGTTAACAAGAAAGAACCATATGAAAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCa                                                                                                        <  1:1134204/141‑1 (MQ=255)

                                 gTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCTTCTGGTCTATAGATACTATCGAAGTACTTCATCt                                                                                                     >  1:1047851/1‑141 (MQ=255)

                                    aaCAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCg                                                                                                  <  1:71758/141‑1 (MQ=255)

                                     aCAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGa                                                                                                 <  1:124065/141‑1 (MQ=255)

                                           aagaaCGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTATATAGATACTGTCGAAATAATTCATCTTCGAATATAc                                                                                           >  1:587897/1‑141 (MQ=255)

                                              aaCGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGtt                                                                                        >  1:1116850/1‑141 (MQ=255)

                                                                 ttttACGATATATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACt                                                                     <  1:815345/140‑1 (MQ=255)

                                                                 gTTTATGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACt                                                                     <  1:143036/141‑1 (MQ=255)

                                                                 gTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACt                                                                     <  1:543961/141‑1 (MQ=255)

                                                                   ttACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTtg                                                                   >  1:399872/1‑141 (MQ=255)

                                                                          ttattaGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGaaa                                                            <  1:144091/141‑1 (MQ=255)

                                                                          ttattaGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGaaa                                                            <  1:905214/141‑1 (MQ=255)

                                                                                   tgccctcttGAGGACGAACACGATAGTATATTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTtgt                                                   <  1:1281332/134‑1 (MQ=255)

                                                                                   tGCACCTGGGAAGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTtgt                                                   <  1:1056243/141‑1 (MQ=255)

                                                                                           tGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGCAATATGCTTGTGAATCGgt                                           >  1:453422/1‑141 (MQ=255)

                                                                                           tGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgt                                           >  1:948750/1‑141 (MQ=255)

                                                                                           tGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGgt                                           >  1:1084510/1‑141 (MQ=255)

                                                                                                     aaCGCTGGTATAGTTATAGCTATGAAAGTGCGACTGTCGTCTGGTCGATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAt                                 <  1:34525/141‑1 (MQ=255)

                                                                                                     aaCGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAt                                 <  1:1152813/141‑1 (MQ=255)

                                                                                                     aaCGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAt                                 <  1:1037209/141‑1 (MQ=255)

                                                                                                      aCGCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAtt                                >  1:575430/1‑141 (MQ=255)

                                                                                                       cgctagtaacagtataGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAttt                               <  1:513055/129‑1 (MQ=255)

                                                                                                        gCTGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTGTCGAAATAATTCATCTTCGAGTATACGTTGATAAATAGCCGGTTTATTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCAtttt                              >  1:586017/1‑141 (MQ=255)

                                                                                                          tGGTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGt                            <  1:1269156/141‑1 (MQ=255)

                                                                                                           ggtacaaagttatcTATGAAAGTGAGGTTGTGGTCTGTTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGta                           <  1:1349433/128‑1 (MQ=255)

                                                                                                           ggTATAGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGta                           <  1:1078673/141‑1 (MQ=255)

                                                                                                           ggTATAGTTATAGCTATGAAAGTGCGAATGTCGGCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGGGAATCGGTTGTTTTGCATTTTGta                           <  1:1007139/141‑1 (MQ=255)

                                                                                                            gTATAGTTAGAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGAAACTATCGAAATAAGTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGtat                          <  1:589795/141‑1 (MQ=255)

                                                                                                              ataGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATAc                        >  1:565509/1‑141 (MQ=255)

                                                                                                              ataGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATAc                        >  1:356361/1‑141 (MQ=255)

                                                                                                              ataGTTATACCTATGAAAGTGCGAATGTCGTCCGGTCTATTGCTACTATCGAAATAATTCATCTAAACAGATACTTTGATAAATATTCTGTTTTCTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATAc                        <  1:1006979/141‑1 (MQ=255)

                                                                                                                aGTTATAGCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACtt                      <  1:1258937/141‑1 (MQ=255)

                                                                                                                       gCTCTGAAAGTGCGCATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATga               <  1:115517/141‑1 (MQ=255)

                                                                                                                       gCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATga               <  1:693218/141‑1 (MQ=255)

                                                                                                                       gCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATga               <  1:726206/141‑1 (MQ=255)

                                                                                                                       gCTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATga               <  1:113739/141‑1 (MQ=255)

                                                                                                                        cTATGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATgag              >  1:1153383/1‑141 (MQ=255)

                                                                                                                          aTGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGAt            <  1:480045/141‑1 (MQ=255)

                                                                                                                           tGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATg           >  1:968004/1‑141 (MQ=255)

                                                                                                                           tGAAAGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATg           >  1:1197033/1‑141 (MQ=255)

                                                                                                                               aGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATGTACGTTGCTAAATGGCCGGTTTAATTGTGTGAAATATGCATGTGAATCAGATCGTTTACATGTTGTATACTAAAAATGAGAAGGaaa       >  1:1074520/1‑141 (MQ=255)

                                                                                                                               aGTGCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCaa       >  1:1105089/1‑141 (MQ=255)

                                                                                                                                  gCGAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTGTGTATACTTGAAATGAGATGGCAatat    >  1:1133670/1‑141 (MQ=255)

                                                                                                                                    gAATGTCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCAATAttt  <  1:669704/141‑1 (MQ=255)

TTAGAAAAAGGCCCGGAGACATTTGATAAATTAGTTAACAAGAAAGAACGATTTGATAAAGTCATGTTTACGATTTATTAGTATGCACCTTTGAGGACGAAAACGCTGGTATAGTTATAGCTATGAAAGTGCGAATGCCGTCTGGTCTATAGATACTATCGAAATAATTCATCTTCGAATATACGTTGATAAATAGCCGGTTTACTTGTGTGAAATATGCTTGTGAATCGGTTGTTTTGCATTTTGTATACTTAAAATGAGATGGCAATATTT  >  CP000730/293803‑294075

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