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 F28 I1 R1	157	47.3	1607120	99.4%	1597477	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,241,484	A→G	G196G (GGT→GGC)	cvrA ←	putative K(+):H(+) antiporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,241,484	0	A	G	100.0%	194.1 / NA	55	G196G (GGT→GGC)	cvrA	putative K(+):H(+) antiporter
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (31/24); total (31/24)

CAGCGCAGTAGTTAATGAGAAAATCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGACCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTCGA  >  NC_000913/1241349‑1241618

cAGCGCAGTAGTTAATGAGAAAATCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGccgt                                                                                                                                    >  1:234933/1‑138 (MQ=255)

             aaTGAGAAAATCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAat                                                                                                                       >  1:232243/1‑140 (MQ=255)

                 attttctCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCg                                                                                                                   >  1:724734/7‑140 (MQ=255)

                  gaAAATCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGa                                                                                                                  >  1:97627/1‑140 (MQ=255)

                    aaaTCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAAttgttg                                                                                                                             >  1:19880/1‑127 (MQ=255)

                    aaaTCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAAttgttg                                                                                                                             <  2:19880/127‑1 (MQ=255)

                       tCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATg                                                                                                             <  1:635969/140‑1 (MQ=255)

                            aTACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACAt                                                                                                        <  2:232243/140‑1 (MQ=255)

                            aTACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACAt                                                                                                        <  2:274493/140‑1 (MQ=255)

                            aTACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACAt                                                                                                        <  1:409433/140‑1 (MQ=255)

                             tACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATc                                                                                                       <  1:112743/140‑1 (MQ=255)

                             tACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATc                                                                                                       >  2:772304/1‑140 (MQ=255)

                               ccGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCa                                                                                                     >  1:302467/1‑140 (MQ=255)

                                  ccACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACAt                                                                                                        >  1:718111/1‑134 (MQ=255)

                                  ccACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACAt                                                                                                        <  2:718111/134‑1 (MQ=255)

                                  ccACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCt                                                                                                  >  1:505101/1‑140 (MQ=255)

                                     cTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAat                                                                                               >  2:166221/1‑140 (MQ=255)

                                            ccAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGctc                                                                                        >  1:303866/1‑140 (MQ=255)

                                             cAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGctct                                                                                       >  1:363475/1‑140 (MQ=255)

                                               gCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCa                                                                                     >  2:21956/1‑140 (MQ=255)

                                               gCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCa                                                                                     <  2:363475/140‑1 (MQ=255)

                                               gCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCa                                                                                     <  1:47582/140‑1 (MQ=255)

                                               gCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCa                                                                                     <  2:724734/140‑1 (MQ=255)

                                                cAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCat                                                                                    <  2:500995/140‑1 (MQ=255)

                                                cAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCat                                                                                    <  2:565319/140‑1 (MQ=255)

                                                     gATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGc                                                                               <  1:26881/140‑1 (MQ=255)

                                                         taATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGa                                                                           <  2:505101/140‑1 (MQ=255)

                                                         taATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGa                                                                           >  2:459833/1‑140 (MQ=255)

                                                             ccGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGatcat                                                                       <  1:459833/140‑1 (MQ=255)

                                                               ggcggGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCg                                                                     >  1:450637/1‑140 (MQ=255)

                                                                gcggGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGc                                                                    >  2:69115/1‑140 (MQ=255)

                                                                   ggCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAAt                                                                 <  1:69115/140‑1 (MQ=255)

                                                                        ggCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAggg                                                            >  2:704908/1‑140 (MQ=255)

                                                                           gATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTaa                                                         <  1:704908/140‑1 (MQ=255)

                                                                                  ttGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAg                                                  >  2:449526/1‑140 (MQ=255)

                                                                                      tCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAg                                              <  1:166221/140‑1 (MQ=255)

                                                                                       cATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGa                                             <  2:303866/140‑1 (MQ=255)

                                                                                        aTTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGAc                                            <  1:449526/140‑1 (MQ=255)

                                                                                        aTTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGAc                                            <  1:772304/140‑1 (MQ=255)

                                                                                            gCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGAc                                            <  1:441713/136‑1 (MQ=255)

                                                                                            gCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGAc                                            >  2:441713/1‑136 (MQ=255)

                                                                                                tagtaAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTg                                    >  1:540791/1‑140 (MQ=255)

                                                                                                   taAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGAt                                 >  1:401291/1‑140 (MQ=255)

                                                                                                   taAATAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGAt                                 >  1:694012/1‑140 (MQ=255)

                                                                                                     aaTAACCGCCGCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCa                               >  2:281954/1‑140 (MQ=255)

                                                                                                          ccgccgCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGAt                                 <  2:305259/133‑1 (MQ=255)

                                                                                                          ccgccgCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGAt                                 >  1:305259/1‑133 (MQ=255)

                                                                                                          ccgccgCCAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACt                          >  1:494154/1‑140 (MQ=255)

                                                                                                             ccgccAAGACCTATTACAATGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGcc                       >  2:189601/1‑140 (MQ=255)

                                                                                                                               aTGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGt     >  2:67327/1‑140 (MQ=255)

                                                                                                                                tGCCCAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTc    >  2:683503/1‑140 (MQ=255)

                                                                                                                                  cccAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTCGa  >  2:175836/1‑140 (MQ=255)

                                                                                                                                  cccAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTCGa  <  2:694012/140‑1 (MQ=255)

                                                                                                                                  cccAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTCGa  >  2:227052/1‑140 (MQ=255)

                                                                                                                                  cccAGGCCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTCGa  >  1:310069/1‑140 (MQ=255)

CAGCGCAGTAGTTAATGAGAAAATCAGAATACCGCCACTTAATGCCAGCAATGGATATAATCCGGCGGGCAGGGCGATGCGGTTGATCATTTGCAGTAGTAAATAACCGCCGCCAAGACCTATTACAATGCCCAGACCAAATTGTTGCAGAATATCGACAATGAACATCCAGCTAATATTGCTCTCATGATGCTGGATCATCGCAATTAGGGTAATCGTCAGAAAGACCGCCATTGGATCATTACTGCCGGATTCAATTTCCAGCGTCGA  >  NC_000913/1241349‑1241618

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A