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
A5 F1 I1 R1	81	47.9	2225048	94.8%	2109345	113.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,995,320	G→A	R14C (CGC→TGC)	uvrY ←	response regulator in two‑component regulatory system with BarA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,995,320	0	G	A	100.0%	207.9 / NA	60	R14C (CGC→TGC)	uvrY	response regulator in two‑component regulatory system with BarA
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (29/31); total (29/31)

ATGTCCATTAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCGCACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGAAACGTTAAAA  >  NC_000913/1995196‑1995447

aTGTCCATTAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGt                                                                                                                   <  2:234394/139‑1 (MQ=255)

 tGTCCATTAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGtc                                                                                                                  >  2:1100080/1‑139 (MQ=255)

   tCCATTAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGtcat                                                                                                                >  1:666124/1‑139 (MQ=255)

       ttAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATGCCTGCGCACGCCAGTTCGTGGTCATcaac                                                                                                            <  1:100711/139‑1 (MQ=255)

       ttAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATcaac                                                                                                            <  1:139023/139‑1 (MQ=255)

        tAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATcaaca                                                                                                           >  1:268089/1‑139 (MQ=255)

            accacGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTa                                                                                                       <  2:444699/139‑1 (MQ=255)

            accacGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTa                                                                                                       >  2:352991/1‑139 (MQ=255)

             ccacGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAg                                                                                                      >  2:306815/1‑139 (MQ=255)

                 gTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCGCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACg                                                                                                  >  1:249604/1‑139 (MQ=255)

                       ggCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCGCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATc                                                                                            <  2:249604/139‑1 (MQ=255)

                        gCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCa                                                                                           <  1:368708/139‑1 (MQ=255)

                                    caccacTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATAtctc                                                                               <  2:268089/139‑1 (MQ=255)

                                       cacTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAg                                                                            >  2:703267/1‑139 (MQ=255)

                                         cTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATcaac                                                                                                            >  1:1090414/1‑105 (MQ=255)

                                         cTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATcaac                                                                                                            <  2:1090414/105‑1 (MQ=255)

                                         cTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGaa                                                                          >  1:844536/1‑139 (MQ=255)

                                                gCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGa                                                                   <  1:352991/139‑1 (MQ=255)

                                                 cGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGAt                                                                  >  1:238801/1‑139 (MQ=255)

                                                   tCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATaa                                                                >  2:502941/1‑139 (MQ=255)

                                                   tCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATaa                                                                <  2:254917/139‑1 (MQ=255)

                                                   tCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATaa                                                                >  1:526910/1‑139 (MQ=255)

                                                   tCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATaa                                                                >  1:92946/1‑139 (MQ=255)

                                                     ttCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACg                                                              <  1:1100080/139‑1 (MQ=255)

                                                      tCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGc                                                             <  2:4678/139‑1 (MQ=255)

                                                        aCCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTa                                                           <  2:666124/139‑1 (MQ=255)

                                                          cGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACt                                                         <  2:800420/139‑1 (MQ=255)

                                                          cGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACt                                                         >  2:655989/1‑139 (MQ=255)

                                                           gCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTg                                                        >  1:346324/1‑139 (MQ=255)

                                                                   ccTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGAtagttag                                                <  1:703267/139‑1 (MQ=255)

                                                                       aCCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCAt                                            <  2:238801/139‑1 (MQ=255)

                                                                       aCCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCAt                                            <  1:1002607/139‑1 (MQ=255)

                                                                         cgacgaCTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTc                                          <  1:502941/139‑1 (MQ=255)

                                                                           acgacTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCacac                                                                                                                              >  1:258239/1‑53 (MQ=255)

                                                                           acgacTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCacac                                                                                                                              <  2:258239/53‑1 (MQ=255)

                                                                           acgacTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTg                                                                                                                     <  1:409722/62‑1 (MQ=255)

                                                                           acgacTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTg                                                                                                                     >  2:409722/1‑62 (MQ=255)

                                                                             gacTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCCGTTCGTGGTCATCAACAAg                                                                                                         >  1:456842/1‑72 (MQ=255)

                                                                             gacTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAg                                                                                                         <  2:456842/72‑1 (MQ=255)

                                                                               cTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTatat                                    <  1:1646/139‑1 (MQ=255)

                                                                                   tataCCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGc                                >  1:1063861/1‑139 (MQ=255)

                                                                                         cTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGtttt                          <  1:306110/139‑1 (MQ=255)

                                                                                          tttATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGAtagtta                                                 >  2:515210/1‑115 (MQ=255)

                                                                                          tttATATCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGAtagtta                                                 <  1:515210/115‑1 (MQ=255)

                                                                                            tataTCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCaa                                                                                          >  2:394306/1‑72 (MQ=255)

                                                                                            tataTCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCaa                                                                                          <  1:394306/72‑1 (MQ=255)

                                                                                            tataTCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGAt                                                                  >  2:958965/1‑96 (MQ=255)

                                                                                            tataTCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGAt                                                                  <  1:958965/96‑1 (MQ=255)

                                                                                               atCTTCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGc                    <  2:844536/139‑1 (MQ=255)

                                                                                                  ttCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAACGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAAc                 >  1:559358/1‑139 (MQ=255)

                                                                                                  ttCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACt                                                         <  2:454520/99‑1 (MQ=255)

                                                                                                  ttCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACt                                                         >  1:454520/1‑99 (MQ=255)

                                                                                                  ttCCAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAAc                 >  2:136144/1‑139 (MQ=255)

                                                                                                    ccAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACtt               >  1:822431/1‑139 (MQ=255)

                                                                                                    ccAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACtt               >  2:634618/1‑139 (MQ=255)

                                                                                                     cAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCaa                                                                                          <  1:556725/63‑1 (MQ=255)

                                                                                                     cAGAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCaa                                                                                          >  2:556725/1‑63 (MQ=255)

                                                                                                       gAATGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGa            <  1:29402/139‑1 (MQ=255)

                                                                                                          tGCGTCGTATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGAAAc         >  1:523391/1‑139 (MQ=255)

                                                                                                            cgtcgtATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGAAACGt       >  1:1028854/1‑139 (MQ=255)

                                                                                                               cgtATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGAAACGTTaa    <  1:310064/139‑1 (MQ=255)

                                                                                                                 tATCCCTGCGCACACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGAAACGTTaaaa  <  2:822431/139‑1 (MQ=255)

                                                                                                                        gcgcacACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGAtagttagt                                               <  2:199605/87‑1 (MQ=255)

                                                                                                                        gcgcacACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGAtagttagt                                               >  1:199605/1‑87 (MQ=255)

                                                                                                                         cgcacACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAat                                                                                    <  2:552984/49‑1 (MQ=255)

ATGTCCATTAGCACCACGTCAACGGCATTTGTCCGGCACCACTTAACGGCGTCTTCACCGCACGATGCCTCACCGACGACTTTTATACCCTTTATATCTTCCAGAATGCGTCGTATCCCTGCGCGCACCAGTTCGTGGTCATCAACAAGTAGAACGTTGATCAAAGGAATATCTCCAGAAATAGGGATAACGCTACTGATAGTTAGTCATTCGTATATTAGCGGTTTTTATTGCAACTTTGAAACGTTAAAA  >  NC_000913/1995196‑1995447

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