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 I1 R1	83	73.5	3575638	92.3%	3300313	107.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,639,156	T→C	N43S (AAC→AGC)	yfgM ←	ancillary SecYEG translocon subunit, putative anti‑RcsB factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,639,156	0	T	C	98.3%	224.5 / NA	60	N43S (AAC→AGC)	yfgM	ancillary SecYEG translocon subunit, putative anti‑RcsB factor
Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (31/28); minor base A (0/1); total (31/29)
Fisher's exact test for biased strand distribution p-value = 4.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACCATAAGTATTTTTATTTTCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGTTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTTCTCGTAAATTTCCACGCTG  >  NC_000913/2639023‑2639287

aCCATAAGTATTTTTATTTTCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAg                                                                                                                                <  1:42232/139‑1 (MQ=255)

    tAAGTATTTTTATTTTCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAgc                                                                                                                            <  2:702585/139‑1 (MQ=255)

      aGTATTTTTATTTTCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAgcgc                                                                                                                          <  1:1187101/139‑1 (MQ=255)

        tatttttattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCgcca                                                                                                                        <  2:34542/139‑1 (MQ=255)

          tttttattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCgccagc                                                                                                                      >  1:25799/1‑139 (MQ=255)

            tttattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCgccagcca                                                                                                                    >  2:1240631/1‑139 (MQ=255)

            tttattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCgccagcca                                                                                                                    >  2:691742/1‑139 (MQ=255)

            tttattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCgccagcca                                                                                                                    >  1:53892/1‑139 (MQ=255)

            tttattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCgccagcca                                                                                                                    >  2:52575/1‑139 (MQ=255)

              tattttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAAt                                                                                                                  <  1:955758/139‑1 (MQ=255)

               attttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATc                                                                                                                 >  1:136582/1‑139 (MQ=255)

                  ttCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGt                                                                                                              >  2:1738693/1‑139 (MQ=255)

                                       cgccgGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCAcc                                                                                         <  1:771313/139‑1 (MQ=255)

                                         ccgGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGT‑ACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCa                                                                                      <  1:900676/139‑1 (MQ=255)

                                           gggATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCaa                                                                                     <  1:1738693/139‑1 (MQ=255)

                                                      cgttttGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGGAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGATCGAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAAGCACCCCAACAGCCAGTGCt                                                                          <  1:1180882/136‑1 (MQ=255)

                                                         tttGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTg                                                                       >  2:664994/1‑139 (MQ=255)

                                                                          cGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCaaaaaa                                                      >  2:179357/1‑139 (MQ=255)

                                                                                  gCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAAt                                                                                                                  <  2:1557155/71‑1 (MQ=255)

                                                                                  gCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAAt                                                                                                                  >  1:1557155/1‑71 (MQ=255)

                                                                                  gCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTaa                                              >  2:1761520/1‑139 (MQ=255)

                                                                                  gCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTaa                                              <  2:136582/139‑1 (MQ=255)

                                                                                  gCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTaa                                              >  2:1676345/1‑139 (MQ=255)

                                                                                  gCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTaa                                              <  1:1761520/139‑1 (MQ=255)

                                                                                   cATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAAc                                             <  1:179357/139‑1 (MQ=255)

                                                                                    aTTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCa                                                                                           >  2:1435906/1‑92 (MQ=255)

                                                                                    aTTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCa                                                                                           <  1:1435906/92‑1 (MQ=255)

                                                                                    aTTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAAcc                                            >  2:168083/1‑139 (MQ=255)

                                                                                      tttGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCa                                                                                                        >  1:386965/1‑77 (MQ=255)

                                                                                      tttGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCa                                                                                                        <  2:386965/77‑1 (MQ=255)

                                                                                        tGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCtt                                        <  1:664994/139‑1 (MQ=255)

                                                                                        tGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCtt                                        <  1:1240631/139‑1 (MQ=255)

                                                                                              gCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCt                                  <  2:25799/139‑1 (MQ=255)

                                                                                                  gagaAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAAt                                                                                                                  <  1:1400819/55‑1 (MQ=255)

                                                                                                  gagaAGCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAAt                                                                                                                  >  2:1400819/1‑55 (MQ=255)

                                                                                                       gCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCt                                                                          >  2:1200458/1‑90 (MQ=255)

                                                                                                       gCGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCt                                                                          <  1:1200458/90‑1 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCa                                                                                      >  2:64747/1‑77 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCa                                                                                      <  1:64747/77‑1 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTg                                                                       >  1:107602/1‑92 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTg                                                                       <  2:107602/92‑1 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGttt                          <  2:247408/137‑1 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGttt                          <  2:811938/137‑1 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGttt                          >  1:811938/1‑137 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGttt                          >  1:247408/1‑137 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTc                        >  1:1626161/1‑139 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTc                        >  1:1561960/1‑139 (MQ=255)

                                                                                                        cGGAGCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTc                        >  1:1257716/1‑139 (MQ=255)

                                                                                                            gCGTGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTtc                    >  1:974037/1‑139 (MQ=255)

                                                                                                               tGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTAcc                                   >  2:1416979/1‑121 (MQ=255)

                                                                                                               tGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTAcc                                   <  1:1416979/121‑1 (MQ=255)

                                                                                                               tGCAGAATCAACCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTTCTCg                 >  1:1302132/1‑139 (MQ=255)

                                                                                                                         aCCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTTCTCGTAAAttt          >  2:1718633/1‑136 (MQ=255)

                                                                                                                         aCCTGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTTCTCGTAAAttt          <  1:1718633/136‑1 (MQ=255)

                                                                                                                            tGATGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTTCTCGTAAATTTCCACGc    <  1:1676345/139‑1 (MQ=255)

                                                                                                                              aTGGCTGCTCCAGTAGCGCCAGCCAATCAGTGTGCCAACGCCCAAAATCACCCCAACAGcc                                                                                <  2:189959/61‑1 (MQ=255)

                                                                                                                              aTGGCTGCTCCAGTAGCGCCAGCCAATCAGTGTGCCAACGCCCAAAATCACCCCAACAGcc                                                                                >  1:189959/1‑61 (MQ=255)

                                                                                                                              aTGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCACCGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCg                                           >  1:1101259/1‑98 (MQ=255)

                                                                                                                              aTGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAATCGCTTCTACCTGGTCGTTTTCGTTCTCGTAAATTTCCACGCTg  >  1:1489655/1‑139 (MQ=255)

                                                                                                                              aTGGCTGCTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCg                                           <  2:1101259/98‑1 (MQ=255)

ACCATAAGTATTTTTATTTTCAGCAGCAAATTTTTCCGCCGCCGGGATGCTATCCGGTTTGCCTTCGCTCACTGCGGTAACCGCATTTTGATAGGCAAGAGAAGCGGAGCGTGCAGAATCAACCTGATGGCTGTTCCAGTAGCGCCAGCCAATCAGTGCGCCAACGCCCAAAATCACCCCAACAGCCAGTGCTTTGCCATTTTCAGCAAAAAAGCGTTTAACCGCTTCTACCTGGTCGTTTTCGTTCTCGTAAATTTCCACGCTG  >  NC_000913/2639023‑2639287

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A