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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	631,812	T→C	F640S (TTC→TCC)	cstA →	carbon starvation protein involved in peptide utilization, APC peptide transporter family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	631,812	0	T	C	100.0%	229.0 / NA	63	F640S (TTC→TCC)	cstA	carbon starvation protein involved in peptide utilization, APC peptide transporter family protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (34/29); total (34/29)

ACCGCAGGCTGGCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTTCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCGAAAGAAACG  >  NC_000913/631676‑631936

aCCGCAGGCTGGCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCca                                                                                                                            >  1:707611/1‑139 (MQ=255)

 ccGCAGGCTGGCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCcaa                                                                                                                           <  2:85804/139‑1 (MQ=255)

   gCAGGCTGGCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCcaaca                                                                                                                         <  1:1463583/139‑1 (MQ=255)

          ggCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCt                                                                                                                  <  2:766792/139‑1 (MQ=255)

           gCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTg                                                                                                                 >  2:1502566/1‑139 (MQ=255)

                               aTGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAtctt                                                                                             >  1:167814/1‑139 (MQ=255)

                                         cGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTAtggtg                                                                                   >  2:800483/1‑139 (MQ=255)

                                             ttCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCg                                                                               <  2:707611/139‑1 (MQ=255)

                                                cTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCgtgg                                                                            <  2:1454753/139‑1 (MQ=255)

                                                        tGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGt                                                                                                       >  2:73349/1‑104 (MQ=255)

                                                        tGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGt                                                                                                       <  1:73349/104‑1 (MQ=255)

                                                        tGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAt                                                                                                >  1:396544/1‑111 (MQ=255)

                                                        tGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAt                                                                                                <  2:396544/111‑1 (MQ=255)

                                                           taataaGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCa                                                                 <  1:206415/139‑1 (MQ=255)

                                                             ataaGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATg                                                                                                             <  2:116992/93‑1 (MQ=255)

                                                             ataaGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATg                                                                                                             >  1:116992/1‑93 (MQ=255)

                                                                  ttCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGcc                                                                                                           >  1:597270/1‑90 (MQ=255)

                                                                  ttCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGcc                                                                                                           <  2:597270/90‑1 (MQ=255)

                                                                    ccAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCa                                                                 >  1:846464/1‑130 (MQ=255)

                                                                    ccAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCa                                                                 <  2:846464/130‑1 (MQ=255)

                                                                          aaTGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTg                                                              >  2:1072541/1‑127 (MQ=255)

                                                                          aaTGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTg                                                              <  1:1072541/127‑1 (MQ=255)

                                                                           aTGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAt                                                                                                <  2:568115/92‑1 (MQ=255)

                                                                           aTGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAt                                                                                                >  1:568115/1‑92 (MQ=255)

                                                                           aTGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGa                                                 >  1:1104261/1‑139 (MQ=255)

                                                                            tGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGAc                                                >  1:297951/1‑139 (MQ=255)

                                                                                  aCAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAAc                                                                                                   >  2:576617/1‑82 (MQ=255)

                                                                                  aCAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAAc                                                                                                   <  1:576617/82‑1 (MQ=255)

                                                                                      cGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCg                                      <  1:800483/139‑1 (MQ=255)

                                                                                      cGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCg                                      >  2:31157/1‑139 (MQ=255)

                                                                                      cGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCg                                      >  2:1451609/1‑139 (MQ=255)

                                                                                         cAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGACACTTGCGGCa                                   <  2:1104261/139‑1 (MQ=255)

                                                                                                  gTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGAt                          >  1:270821/1‑139 (MQ=255)

                                                                                                           taCTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCg                                                                                                          >  2:365678/1‑50 (MQ=255)

                                                                                                           taCTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCg                                                                                                          <  1:365678/50‑1 (MQ=255)

                                                                                                           taCTGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCa                 <  1:181568/139‑1 (MQ=255)

                                                                                                              tGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAt                                                                                                <  1:658794/57‑1 (MQ=255)

                                                                                                              tGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCAt                                                                                                >  2:658794/1‑57 (MQ=255)

                                                                                                              tGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCa                 <  2:315307/136‑1 (MQ=255)

                                                                                                              tGAGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCa                 >  1:315307/1‑136 (MQ=255)

                                                                                                                aGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCgtggt                                                                           <  1:452183/76‑1 (MQ=255)

                                                                                                                aGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCgtggt                                                                           >  2:452183/1‑76 (MQ=255)

                                                                                                                aGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCGCtt                                         <  2:210728/110‑1 (MQ=255)

                                                                                                                aGTCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACtt                                         >  1:210728/1‑110 (MQ=255)

                                                                                                                  tCACAGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCga          >  1:382930/1‑139 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAAcc                                                                                                  <  1:429327/50‑1 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAAcc                                                                                                  >  2:429327/1‑50 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCa                                                                 <  2:134680/83‑1 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCa                                                                 >  1:134680/1‑83 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGa                                                 <  2:228442/99‑1 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGa                                                 >  1:228442/1‑99 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGTACTTGCGGCATTGAAAGATCCGAAGCCAACGGCgaa         >  2:266330/1‑139 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCgaa         >  2:1067816/1‑139 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCgaa         >  1:136424/1‑139 (MQ=255)

                                                                                                                   cacaGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCgaa         >  1:374676/1‑139 (MQ=255)

                                                                                                                     caGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCgaaag       >  2:1191999/1‑139 (MQ=255)

                                                                                                                     caGCTGGCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCgaaag       >  2:173312/1‑139 (MQ=255)

                                                                                                                          ggCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCGAAAGAAACg  <  1:1502566/139‑1 (MQ=255)

                                                                                                                          ggCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCGAAAGAAACg  <  1:1191999/139‑1 (MQ=255)

                                                                                                                          ggCGCAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCGAAAGAAACg  <  2:297951/139‑1 (MQ=255)

                                                                                                                            cgcAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGtggtgg                                                                         >  1:284456/1‑66 (MQ=255)

                                                                                                                            cgcAACTGGTGTCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGtggtgg                                                                         <  2:284456/66‑1 (MQ=255)

                                                                                                                                     tgtCCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCa                                                                 >  2:655281/1‑65 (MQ=255)

ACCGCAGGCTGGCAGAAAGCGTTTAGCCCGGATGCGAAAGTCGGCTTCCTGGCCATTGCTAATAAGTTCCAGGCAATGATCGACAGCGGCAATATTCCGTCGCAGTATACTGAGTCACAGCTGGCGCAACTGGTGTTCAACAACCGTCTGGATGCCGGGTTAACCATCTTCTTTATGGTGGTCGTGGTGGTTCTGGCACTGTTCTCGATTAAGACGGCACTTGCGGCATTGAAAGATCCGAAGCCAACGGCGAAAGAAACG  >  NC_000913/631676‑631936

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A