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
A1 F1 I2 R1	765	46.1	2269152	93.8%	2128464	105.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,908,514	A→G	intergenic (‑148/+35)	pstB ← / ← pstA	phosphate ABC transporter ATPase/phosphate ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,908,514	0	A	G	100.0%	219.9 / NA	61	intergenic (‑148/+35)	pstB/pstA	phosphate ABC transporter ATPase/phosphate ABC transporter permease
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (30/31); total (30/31)

TGCCTGATGCACTTCGCTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGAGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTAATGATC  >  NC_000913/3908386‑3908621

tGCCTGATGCACTTCGCTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGTGGTTAGGGt                                                                                                   >  2:776306/1‑139 (MQ=255)

tGCCTGATGCACTTCGCTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGt                                                                                                   >  1:1057707/1‑139 (MQ=255)

           cTTCGCTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAAc                                                                                        >  1:237576/1‑139 (MQ=255)

              cGCTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCgt                                                                                     <  2:205257/139‑1 (MQ=255)

                cTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCgtgt                                                                                   <  2:711055/139‑1 (MQ=255)

                 tAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTc                                                                                  >  2:892716/1‑139 (MQ=255)

                  aaTCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCa                                                                                 <  1:892716/139‑1 (MQ=255)

                    tCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               <  2:237576/139‑1 (MQ=255)

                         cTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGa                                                                                                 >  2:1118274/1‑116 (MQ=255)

                         cTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGa                                                                                                 <  1:1118274/116‑1 (MQ=255)

                         cTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAatat                                                                          >  2:300716/1‑139 (MQ=255)

                               gTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCg                                                                    >  2:334795/1‑139 (MQ=255)

                                  ggCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCgtgt                                                                 >  1:107808/1‑139 (MQ=255)

                                  ggCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCgtgt                                                                 >  1:424848/1‑139 (MQ=255)

                                             gCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               <  1:184223/114‑1 (MQ=255)

                                             gCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               >  2:184223/1‑114 (MQ=255)

                                                  cACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAAc                                                                      >  2:575963/1‑118 (MQ=255)

                                                  cACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAAc                                                                      <  1:575963/118‑1 (MQ=255)

                                                  cACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCaaaaa                                                 >  2:388913/1‑139 (MQ=255)

                                                       cgcATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcg                                            >  1:196490/1‑139 (MQ=255)

                                                       cgcATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcg                                            <  1:388913/139‑1 (MQ=255)

                                                         cATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcgcg                                          <  2:424848/139‑1 (MQ=255)

                                                                   aGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCgt                                                                                     >  1:471955/1‑86 (MQ=255)

                                                                   aGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCgt                                                                                     <  2:471955/86‑1 (MQ=255)

                                                                   aGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcg                                            >  1:1106249/1‑127 (MQ=255)

                                                                   aGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcg                                            <  2:1106249/127‑1 (MQ=255)

                                                                          aCCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGa                                   >  1:63865/1‑129 (MQ=255)

                                                                          aCCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGa                                   <  2:63865/129‑1 (MQ=255)

                                                                               gtACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAAc                                                                      <  2:337353/89‑1 (MQ=255)

                                                                               gtACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAAc                                                                      >  1:337353/1‑89 (MQ=255)

                                                                               gtACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGt                    >  1:1033744/1‑139 (MQ=255)

                                                                                   agagTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGc                <  2:107808/139‑1 (MQ=255)

                                                                                    gagTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               <  2:196490/139‑1 (MQ=255)

                                                                                    gagTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               <  2:1057707/139‑1 (MQ=255)

                                                                                    gagTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               <  2:1033744/139‑1 (MQ=255)

                                                                                    gagTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               <  1:334795/139‑1 (MQ=255)

                                                                                    gagTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               <  1:776306/139‑1 (MQ=255)

                                                                                     agTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               >  1:993959/1‑74 (MQ=255)

                                                                                     agTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               <  2:993959/74‑1 (MQ=255)

                                                                                      gTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATCTCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGcaca             >  2:812252/1‑139 (MQ=255)

                                                                                      gTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGcaca             >  2:566679/1‑139 (MQ=255)

                                                                                      gTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGcaca             >  2:224248/1‑139 (MQ=255)

                                                                                       tCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAg            <  1:812252/139‑1 (MQ=255)

                                                                                         aacaaGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAggg          <  1:932646/136‑1 (MQ=255)

                                                                                           aaaGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTa        <  1:224248/139‑1 (MQ=255)

                                                                                           aaaGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTa        <  1:566679/139‑1 (MQ=255)

                                                                                               gcgcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGcaca             <  2:257642/130‑1 (MQ=255)

                                                                                               gcgcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGcaca             >  1:257642/1‑130 (MQ=255)

                                                                                               gcgcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               >  2:922291/1‑128 (MQ=255)

                                                                                               gcgcTCGGTCGGTCCCCTCGCCCCGCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGca               <  1:922291/128‑1 (MQ=255)

                                                                                                 gcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAggg                                                                                              >  1:326184/1‑47 (MQ=255)

                                                                                                 gcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAggg                                                                                              <  2:326184/47‑1 (MQ=255)

                                                                                                 gcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGCAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTAATGATc  >  2:210441/1‑139 (MQ=255)

                                                                                                 gcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTa        <  2:283773/133‑1 (MQ=255)

                                                                                                 gcTCGGTCGGTCCCCTCGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTa        >  1:283773/1‑133 (MQ=255)

                                                                                                                 cGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcg                                            <  1:305055/81‑1 (MQ=255)

                                                                                                                 cGCCCCTCTGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAAcg                                            >  2:305055/1‑81 (MQ=255)

                                                                                                                       tctGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTa        <  2:828184/111‑1 (MQ=255)

                                                                                                                       tctGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTa        >  1:828184/1‑111 (MQ=255)

                                                                                                                        ctGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               >  2:67308/1‑39 (MQ=255)

                                                                                                                        ctGGGGAGGGGGTTAGGGTGAGGGGAAAACCGTGTCAGc                                                                               <  1:67308/39‑1 (MQ=18)

TGCCTGATGCACTTCGCTAATCAGGCTTACCGTAGGCCGGATCAGGCGTTCACGCCGCATCCGGCAAAGTGTTAACCGTGTACAGAGTCAAAAAGGCGCTCGGTCGGTCCCCTCGCCCCTCTGGGGAGAGGGTTAGGGTGAGGGGAAAACCGTGTCAGCAATATCAACCGTGTTTATTCTTCGCAAAAACAACGCGCGCCAGAATGTTCAGCAGCAGTACGCACAGGGTAATGATC  >  NC_000913/3908386‑3908621

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A