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
A35 F60 I1 R1	21	103.5	3513884	98.6%	3464689	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,296,381	+GC	intergenic (+587/+55)	gltP → / ← yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,296,380	1	.	C	100.0%	204.9 / NA	54	intergenic (+586/+56)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (26/28); total (26/28)
*	NC_000913	4,296,380	2	.	G	100.0%	204.0 / NA	54	intergenic (+586/+56)	gltP/yjcO	glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (26/28); total (26/28)

CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACC  >  NC_000913/4296305‑4296506

||

cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑g                                                                  <  1:793043/140‑1 (MQ=9)

cgcgTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑g                                                                  <  1:642095/140‑1 (MQ=9)

    tCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTgg                                                              >  1:882647/1‑140 (MQ=255)

     cTTATCAGGCCTACGCCAGACAGCACAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGt                                                             >  2:1735028/1‑140 (MQ=255)

         tCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAAt                                                         >  1:1306036/1‑140 (MQ=255)

             gCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAAttttt                                                     >  1:656266/1‑140 (MQ=255)

             gCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAAttttt                                                     >  1:1061253/1‑140 (MQ=255)

               cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCa                                                   <  2:1306036/140‑1 (MQ=255)

               cTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCa                                                   <  1:35491/140‑1 (MQ=255)

                tACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaa                                                  <  1:13281/140‑1 (MQ=255)

                 aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaaa                                                 <  1:213714/140‑1 (MQ=255)

                 aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaaa                                                 <  1:1587554/140‑1 (MQ=255)

                 aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaaa                                                 <  2:656266/140‑1 (MQ=255)

                 aCGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaaa                                                 <  2:1061253/140‑1 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTaa                                                          >  2:1202747/1‑125 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTaa                                                          <  1:1202747/125‑1 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaaa                                                 <  1:521185/134‑1 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCaaa                                                 >  2:521185/1‑134 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTc                                           >  1:1659584/1‑140 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTc                                           >  2:430048/1‑140 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTc                                           >  1:442071/1‑140 (MQ=255)

                       gACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTc                                           >  2:627614/1‑140 (MQ=255)

                        aCAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTca                                          >  2:1435322/1‑140 (MQ=255)

                            cacAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACAcc                                      <  1:1735028/138‑1 (MQ=255)

                             gcAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACAccc                                     <  2:22019/140‑1 (MQ=255)

                              cAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCg                                    <  2:1659584/140‑1 (MQ=255)

                                 tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCa                                                   >  2:1662332/1‑122 (MQ=255)

                                 tAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCa                                                   <  1:1662332/122‑1 (MQ=255)

                                      tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            <  1:900101/140‑1 (MQ=255)

                                      tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            <  1:430048/140‑1 (MQ=255)

                                      tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            <  1:1435322/140‑1 (MQ=255)

                                      tGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            <  2:1743652/140‑1 (MQ=255)

                                           tAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt                       <  1:1112210/140‑1 (MQ=255)

                                           tAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCtt                       >  2:360379/1‑140 (MQ=255)

                                            aGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTc                      >  2:1417079/1‑140 (MQ=255)

                                            aGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTc                      >  1:536702/1‑140 (MQ=255)

                                            aGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTc                      >  2:83040/1‑140 (MQ=255)

                                             gCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            >  2:919434/1‑133 (MQ=255)

                                             gCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            <  1:919434/133‑1 (MQ=255)

                                                tGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATa                  >  2:627765/1‑140 (MQ=255)

                                                  aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCa                    >  2:1079702/1‑140 (MQ=18)

                                                  aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTAt                                <  1:712830/124‑1 (MQ=255)

                                                  aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTAt                                >  2:712830/1‑124 (MQ=255)

                                                  aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            <  2:422416/128‑1 (MQ=255)

                                                  aTTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCaaa                            >  1:422416/1‑128 (MQ=255)

                                                          ggTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt        <  1:83040/140‑1 (MQ=255)

                                                          ggTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt        <  2:442071/140‑1 (MQ=255)

                                                          ggTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGt        <  1:1417079/140‑1 (MQ=255)

                                                             cGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCa     >  2:1628029/1‑140 (MQ=255)

                                                              ggATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCAt                   >  2:1355726/1‑125 (MQ=255)

                                                              ggATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCAt                   >  2:473275/1‑125 (MQ=255)

                                                              ggATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCAt                   <  1:473275/125‑1 (MQ=255)

                                                              ggATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCAt                   <  1:1355726/125‑1 (MQ=255)

                                                                aTAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAAcc  >  2:425495/1‑140 (MQ=255)

||

CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACC‑‑‑‑GTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACC  >  NC_000913/4296305‑4296506

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A