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
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,325,152	A→G	I5T (ATC→ACC)	phnC ←	phosphonate ABC transporter ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,325,152	0	A	G	100.0%	216.8 / NA	60	I5T (ATC→ACC)	phnC	phosphonate ABC transporter ATPase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (29/31); total (29/31)

AGTGACGTAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGATAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACAGTGCGGGAGG  >  NC_000913/4325018‑4325280

aGTGACGTAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTAATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAAt                                                                                                                              <  1:861516/139‑1 (MQ=255)

    aCGTAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGtt                                                                                                                          >  1:471992/1‑139 (MQ=255)

        aaaaGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCa                                                                                                                      <  2:900490/139‑1 (MQ=255)

               tGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGt                                                                                                                           >  1:109587/1‑127 (MQ=255)

               tGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGt                                                                                                                           <  2:109587/127‑1 (MQ=255)

               tGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACAGGTAATCGTTTGc                                                                                                                       >  2:804731/1‑131 (MQ=255)

               tGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCACGACACGGGTAATCGTTTGc                                                                                                                       <  1:804731/131‑1 (MQ=255)

                       ccGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTa                                                                                                                                <  1:581161/114‑1 (MQ=255)

                             cccGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                             <  1:76697/127‑1 (MQ=255)

                             cccGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                             >  2:76697/1‑127 (MQ=255)

                              ccGACGGCCCAAGCAGAGCGACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTCAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAg                                                                                                <  1:893697/139‑1 (MQ=255)

                                gACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGGTTGCATGATGCAGCCTCCCTAAAAAAGTg                                                                                              >  1:882158/1‑139 (MQ=255)

                                               gCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCgg                                                                               >  1:707970/1‑139 (MQ=255)

                                                ccaccaTTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGa                                                                              <  2:572/139‑1 (MQ=255)

                                                    caTTACACCGTGATGAATGTTAAGAACAACCCCATACAGCGCCTGATGCTGATTGAAGGTTTTGGTGAGCTTCTCGACACGGGTAACAGTTTGCATGATGCAGCCTCCCTAAAATAGTGGCTCCATCGAGGCGGataat                                                                          >  1:357505/1‑139 (MQ=255)

                                                       ttCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATtgt                                                                       <  1:1264500/139‑1 (MQ=255)

                                                        tCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCNNNTGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGACGGATTATtgtg                                                                      <  2:471992/139‑1 (MQ=255)

                                                             gTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCa                                                                                                                      <  1:878624/86‑1 (MQ=255)

                                                             gTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCa                                                                                                                      >  2:878624/1‑86 (MQ=255)

                                                              tgatgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCg                                                                                >  1:374636/1‑123 (MQ=255)

                                                              tgatgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCg                                                                                <  2:374636/123‑1 (MQ=255)

                                                               gatgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGAttt                                                               >  1:1177632/1‑139 (MQ=255)

                                                                 tgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTgg                                                             <  1:1311596/139‑1 (MQ=255)

                                                                 tgaATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTgg                                                             <  2:1230909/139‑1 (MQ=255)

                                                                     tGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCGTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGa                                                                     >  1:913045/1‑127 (MQ=255)

                                                                     tGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAACAGTGGCTCCATCGTGGCGGATTATTGTGa                                                                     <  2:913045/127‑1 (MQ=255)

                                                                          aGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTaaa                                                                                                    >  1:226772/1‑91 (MQ=255)

                                                                          aGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTaaa                                                                                                    <  2:226772/91‑1 (MQ=255)

                                                                          aGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGa                                                                              <  1:42966/113‑1 (MQ=255)

                                                                          aGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGa                                                                              >  2:42966/1‑113 (MQ=255)

                                                                           gATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTaaaa                                                   <  1:197971/139‑1 (MQ=255)

                                                                           gATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTaaaa                                                   <  2:707970/139‑1 (MQ=255)

                                                                            aTCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTgg                                                                                             >  1:842713/1‑96 (MQ=255)

                                                                            aTCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTgg                                                                                             <  2:842713/96‑1 (MQ=255)

                                                                            aTCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAg                                                  >  1:996751/1‑139 (MQ=255)

                                                                               aaCCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTc                                                                                                          >  2:133530/1‑80 (MQ=255)

                                                                               aaCCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTc                                                                                                          <  1:133530/80‑1 (MQ=255)

                                                                               aaCCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGa                                               >  2:126094/1‑139 (MQ=255)

                                                                                      tGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTa                                                                                                                                >  1:689362/1‑51 (MQ=255)

                                                                                         aGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATg                                     <  2:996751/139‑1 (MQ=255)

                                                                                           cgcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                                   >  1:272847/1‑139 (MQ=255)

                                                                                           cgcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGaa                                   >  1:931460/1‑139 (MQ=255)

                                                                                            gcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAg                                                                                                <  2:199796/77‑1 (MQ=255)

                                                                                            gcCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAg                                                                                                >  1:199796/1‑77 (MQ=255)

                                                                                                    cTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACg                          <  2:1177632/139‑1 (MQ=255)

                                                                                                            aGGTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTCACAGATGAAGAGTTAACGGGAATTCg                  >  1:870297/1‑139 (MQ=255)

                                                                                                             ggTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                             <  1:95688/47‑1 (MQ=255)

                                                                                                             ggTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                             >  2:95688/1‑47 (MQ=255)

                                                                                                              gTTTTGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGAt                >  2:1204713/1‑139 (MQ=255)

                                                                                                                tttAGCGAGCTTCTCGACACGGGTATTCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGa              <  2:882158/139‑1 (MQ=255)

                                                                                                                 ttGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                             >  2:126649/1‑43 (MQ=255)

                                                                                                                 ttGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGc                                                                                                             <  1:126649/43‑1 (MQ=255)

                                                                                                                  tGGCGAGCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAATAAGTGGCTCCATCGTGGCGGATTGTTGTGACGATTTGGTCAATTAAAAGTTACTAACAGATGAAGAGTTAACGGGAATTCGATGACa            <  2:870297/139‑1 (MQ=255)

                                                                                                                        gCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATtgtg                                                                      <  2:477562/75‑1 (MQ=255)

                                                                                                                        gCTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATtgtg                                                                      >  1:477562/1‑75 (MQ=255)

                                                                                                                         cTTCTCGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACAGTGCggg     >  1:958811/1‑139 (MQ=255)

                                                                                                                            ctcGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACAGTGCGGGAgg  >  2:1202973/1‑139 (MQ=255)

                                                                                                                            ctcGACACGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACAGTGCGGGAgg  <  2:272847/139‑1 (MQ=255)

                                                                                                                                   cGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGCTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGAt                >  2:1310220/1‑118 (MQ=255)

                                                                                                                                   cGGGTAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGCTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGAt                <  1:1310220/118‑1 (MQ=255)

AGTGACGTAAAAGGGTGGATTTTCCGGAACCCGACGGCCCAAGCAGAGCCACCATTTCACCGTGATGAATGTTCAGATCAACCGCATGCAGCGCCTGATGCTGATTGAAGGTTTTGGCGAGCTTCTCGACACGGATAATCGTTTGCATGATGCAGCCTCCCTAAAAAAGTGGCTCCATCGTGGCGGATTATTGTGACGATTTGGTTAATTAAAAGTGACTAACAGATGAAGAGTTAACGGGAATTCGATGACAGTGCGGGAGG  >  NC_000913/4325018‑4325280

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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