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
A14 F1 I1 R1	770	68.5	3470224	91.7%	3182195	103.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,152,876	G→A	P85S (CCG→TCG)	yegL ←	VMA domain protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,152,876	0	G	A	98.3%	189.0 / ‑4.2	60	P85S (CCG→TCG)	yegL	VMA domain protein
Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (32/27); total (32/28)
Fisher's exact test for biased strand distribution p-value = 4.67e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.81e-01

GTAATCAGGAAAATCCACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑GAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAGTTCATCACGAAAGGTAACCAATCCGGCGT  >  NC_000913/2152740‑2153007

gTAATCAGGAAAATCCACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGAATCGCCCTGGGCAAACAGGATGGGCG‑aaa                                                                                                                                   >  1:1174142/1‑139 (MQ=255)

       ggAAAATCCACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAAtt                                                                                                                            >  1:1346555/1‑139 (MQ=255)

           aaTCCACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAgcg                                                                                                                        >  1:100601/1‑139 (MQ=255)

             tCCACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGC‑‑GAAAAAAATTAgcggcg                                                                                                                     <  2:555801/139‑1 (MQ=255)

              ccACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAgcggcg                                                                                                                     <  2:1346555/139‑1 (MQ=255)

              ccACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAgcggcg                                                                                                                     <  1:1382145/139‑1 (MQ=255)

                  gggCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTgg                                                                                                                 >  1:174836/1‑139 (MQ=255)

                       ataataCGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAg                                                                                                            >  1:1022903/1‑139 (MQ=255)

                       ataataCGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAg                                                                                                            >  2:643476/1‑139 (MQ=255)

                       ataataCGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAg                                                                                                            >  1:1141281/1‑139 (MQ=255)

                              gAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgtt                                                                                                     >  1:897215/1‑139 (MQ=255)

                                  tACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCcac                                                                                                 >  2:1199080/1‑139 (MQ=255)

                                  tACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCcac                                                                                                 <  2:100601/139‑1 (MQ=255)

                                       tttGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCa                                                                                            <  2:648432/139‑1 (MQ=255)

                                       tttGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCa                                                                                            <  1:1199080/139‑1 (MQ=255)

                                                  cTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAAc                                                                                 >  1:340696/1‑139 (MQ=255)

                                                   tCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACg                                                                                >  2:66474/1‑139 (MQ=255)

                                                      cGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTca                                                                             <  2:340696/139‑1 (MQ=255)

                                                          tCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGaa                                                                                  >  2:1682407/1‑130 (MQ=255)

                                                          tCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGaa                                                                                  <  1:1682407/130‑1 (MQ=255)

                                                            cGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGc                                                                       >  2:1134468/1‑139 (MQ=255)

                                                                       cATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCAct                                                            <  2:174836/139‑1 (MQ=255)

                                                                        atatCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCActc                                                           <  2:1022903/139‑1 (MQ=255)

                                                                         tatCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAgcggcg                                                                                                                     <  2:225107/80‑1 (MQ=255)

                                                                         tatCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAgcggcg                                                                                                                     >  1:225107/1‑80 (MQ=255)

                                                                                ggCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCGAAAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTaa                                                    >  2:1543237/1‑139 (MQ=255)

                                                                                ggCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCg                                                                     <  2:1265080/121‑1 (MQ=255)

                                                                                ggCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCg                                                                     >  1:1265080/1‑121 (MQ=255)

                                                                                ggCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTaaa                                                   >  1:454420/1‑139 (MQ=255)

                                                                                ggCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTaaa                                                   >  1:143020/1‑139 (MQ=255)

                                                                                ggCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTaaa                                                   >  2:679338/1‑139 (MQ=255)

                                                                                 gCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGaa                                                                                  >  1:785061/1‑107 (MQ=255)

                                                                                 gCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGaa                                                                                  <  2:785061/107‑1 (MQ=255)

                                                                                     tGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      <  1:1493106/83‑1 (MQ=255)

                                                                                     tGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      >  1:1200506/1‑83 (MQ=255)

                                                                                     tGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      <  2:1200506/83‑1 (MQ=255)

                                                                                     tGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      >  2:1493106/1‑83 (MQ=255)

                                                                                     tGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAg                                              >  1:117417/1‑139 (MQ=255)

                                                                                         aaTTGCCGCACCCAGTGGTGTATCGGCCTGGGCAAAAAGGATGGGCG‑AAAAAAAAATAGCGGCGCTGGTAAAGGGTTGTTCCACATGCCCCGGGCCGAAAGTCACAATGCCGGGCTCCACCCTTTTTAAAGCCAGCGGa                                          <  2:1174142/139‑1 (MQ=255)

                                                                                          aTGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      <  1:1443949/78‑1 (MQ=255)

                                                                                          aTGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      >  2:1443949/1‑78 (MQ=255)

                                                                                               cGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAggg                                                                                                          >  1:1360572/1‑69 (MQ=255)

                                                                                               cGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAggg                                                                                                          <  2:1360572/69‑1 (MQ=255)

                                                                                               cGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGaa                                                                                  <  2:993814/93‑1 (MQ=255)

                                                                                               cGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGaa                                                                                  >  1:993814/1‑93 (MQ=255)

                                                                                                 cgcccATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCagcaag                                  >  2:1276851/3‑139 (MQ=255)

                                                                                                 cACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAggg                                                                                                          <  1:797001/67‑1 (MQ=255)

                                                                                                 cACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAggg                                                                                                          >  2:797001/1‑67 (MQ=255)

                                                                                                    ccATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAg                               <  2:1141281/139‑1 (MQ=255)

                                                                                                    ccATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAg                               <  1:643476/139‑1 (MQ=255)

                                                                                                    ccATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAg                               <  1:1276851/139‑1 (MQ=255)

                                                                                                       ttGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAGTtc                            <  2:143020/139‑1 (MQ=255)

                                                                                                              aTCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTcaca                                                                           <  2:1553132/85‑1 (MQ=255)

                                                                                                              aTCGCCCTGGGCAAACAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTcaca                                                                           >  1:1553132/1‑85 (MQ=255)

                                                                                                                            aCAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTa                                                     <  2:1414819/93‑1 (MQ=255)

                                                                                                                            aCAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTa                                                     >  1:1414819/1‑93 (MQ=255)

                                                                                                                            aCAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAGTTCATCACGAAAGGTAACCAATcc       >  1:1728615/1‑139 (MQ=255)

                                                                                                                             cAGGATGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAGTTCATCACGAAAGGTAACCAATCCg      <  1:679338/139‑1 (MQ=255)

                                                                                                                                 aTGGGCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAATTCATCACGAAAGGTAACCAATCCGGCGt  >  1:1171884/1‑139 (MQ=255)

                                                                                                                                     gCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      <  1:333085/35‑1 (MQ=255)

                                                                                                                                     gCG‑AAAAAAAATTAGCGGCGCTGGTAAAGGgttgt                                                                                                      >  2:333085/1‑35 (MQ=255)

GTAATCAGGAAAATCCACGGGCGATAATACGAAATACCATTTGCACGATACTCACGTTTCCGCTCCTCTACCATATCCAGGGCTTTGGTAATGGCCGCACCCATTGGTGTATCGCCCTGGGCAAACAGGATGGGCG‑GAAAAAAATTAGCGGCGCTGGTAAAGGGTTGTTCCACATGCACCGGGCCGAACGTCACAATGCCGAGTTCCACTCTTTTTAAAGCCAGCGGATCAGCAAGCAGTTCATCACGAAAGGTAACCAATCCGGCGT  >  NC_000913/2152740‑2153007

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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