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	2,618,075	C→T	234 (TAG→TAA)	hda ←	ATPase regulatory factor involved in DnaA inactivation

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,618,075	0	C	T	100.0%	200.7 / NA	62	234 (TAG→TAA)	hda	ATPase regulatory factor involved in DnaA inactivation
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (35/27); total (35/27)

CTCCATCGCTAGTTGAAGCACATTGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATCTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGTCGAGCCGCTTCAGCAAGAAACGCCC  >  NC_000913/2617944‑2618209

cTCCATCGCTAGTTGAAGCACATTGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACt                                                                                                                                 >  2:349043/1‑139 (MQ=255)

   cATCGCTAGTTGAAGCACATTGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTCGGGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTc                                                                                                                               >  2:76200/1‑139 (MQ=255)

    aTCGCTAGTTGAAGCACATTGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAg                                                                                                                             >  1:341573/1‑139 (MQ=255)

                      ttGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACaa                                                                                                               <  2:376748/135‑1 (MQ=255)

                      ttGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACaa                                                                                                               >  1:376748/1‑135 (MQ=255)

                               gCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTca                                                                                                                  <  2:828374/123‑1 (MQ=255)

                               gCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTca                                                                                                                  >  1:828374/1‑123 (MQ=255)

                                              tCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGt                                                                                   <  1:349043/139‑1 (MQ=255)

                                                  aTCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATc                                                                               >  2:1167060/1‑139 (MQ=255)

                                                  aTCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATc                                                                               >  1:1287655/1‑139 (MQ=255)

                                                       gCCTACGAATACTATGGATTAACTTCGCGTAGTTCGGGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACg                                                                           <  1:76200/139‑1 (MQ=255)

                                                       gCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAAt                                                                                <  2:382869/133‑1 (MQ=255)

                                                       gCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAAt                                                                                >  1:382869/1‑133 (MQ=255)

                                                        ccTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         <  1:1167060/139‑1 (MQ=255)

                                                                  cTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACt                                                               >  2:157019/1‑139 (MQ=255)

                                                                  cTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACt                                                               >  1:1225539/1‑139 (MQ=255)

                                                                     tGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGAt                                                            >  1:315146/1‑139 (MQ=255)

                                                                      ggATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATc                                                           >  1:548849/1‑139 (MQ=255)

                                                                      ggATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATc                                                           >  1:186786/1‑139 (MQ=255)

                                                                        aTTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCa                                                         <  2:186786/139‑1 (MQ=255)

                                                                        aTTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCa                                                         <  1:498771/139‑1 (MQ=255)

                                                                        aTTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCa                                                         <  2:548849/139‑1 (MQ=255)

                                                                        aTTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCa                                                         >  2:822002/1‑139 (MQ=255)

                                                                            aCTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         <  2:700445/119‑1 (MQ=255)

                                                                            aCTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         >  1:700445/1‑119 (MQ=255)

                                                                            aCTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAAc                                                       <  1:456507/137‑1 (MQ=255)

                                                                            aCTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAAc                                                       >  2:456507/1‑137 (MQ=255)

                                                                             cTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGaa                                                                                                                           <  1:337837/68‑1 (MQ=255)

                                                                             cTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGaa                                                                                                                           >  2:337837/1‑68 (MQ=255)

                                                                             cTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         >  1:808041/1‑118 (MQ=255)

                                                                             cTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         <  2:808041/118‑1 (MQ=255)

                                                                                 gcgTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGCTCCAACTGATCCAACGTCATaa                                                >  1:707799/1‑139 (MQ=255)

                                                                                 gcgTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATaa                                                >  2:1235876/1‑139 (MQ=255)

                                                                                  cgTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGa                                                                                                          >  2:192979/1‑80 (MQ=255)

                                                                                  cgTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGa                                                                                                          <  1:192979/80‑1 (MQ=255)

                                                                                  cgTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATaaa                                               >  2:759976/1‑139 (MQ=255)

                                                                                                  gCGTTCGCGCCGCATCCGAGAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAAc                                                       >  2:911741/1‑116 (MQ=255)

                                                                                                  gCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAAttt                                                                                                                        <  2:957770/51‑1 (MQ=255)

                                                                                                  gCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAAttt                                                                                                                        >  1:957770/1‑51 (MQ=255)

                                                                                                  gCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATgg                                                                                                      <  2:590930/69‑1 (MQ=255)

                                                                                                  gCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATgg                                                                                                      >  1:590930/1‑69 (MQ=255)

                                                                                                  gCGTTCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAAc                                                       <  1:911741/116‑1 (MQ=255)

                                                                                                     ttCGCGCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTctct                             >  2:428793/1‑139 (MQ=255)

                                                                                                      tCGCGCCGCATCCGACAACAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATgg                                                                                                      >  2:899560/1‑65 (MQ=255)

                                                                                                      tCGCGCCGCAGCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATgg                                                                                                      <  1:899560/65‑1 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTcac                                                                                                                 >  1:152158/1‑53 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTcac                                                                                                                 <  2:152158/53‑1 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGAt                                                                     >  1:1326433/1‑97 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGAt                                                                     <  2:1326433/97‑1 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAAc                                                       <  2:167045/111‑1 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAAc                                                       >  1:167045/1‑111 (MQ=255)

                                                                                                       cgcgCCGCATCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGt                           >  1:224855/1‑139 (MQ=255)

                                                                                                                tCCGACAATAAACACCTTATTTACAACTTCATAATTTCTTTCACAAACGTAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGTCGAGCCGCt                  <  1:822002/139‑1 (MQ=255)

                                                                                                                tCCGACAATAAACACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGTCGAGCCGCt                  <  1:543269/139‑1 (MQ=255)

                                                                                                                          aaCACCTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGTCGAGCCGCTTCAGCAAGaa        <  1:1235876/139‑1 (MQ=255)

                                                                                                                              ccTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         <  1:148827/70‑1 (MQ=255)

                                                                                                                              ccTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCa                                                                         >  2:148827/1‑70 (MQ=255)

                                                                                                                               cTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGAt                                                                     >  2:1254195/1‑73 (MQ=255)

                                                                                                                               cTTATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGAt                                                                     <  1:1254195/73‑1 (MQ=255)

                                                                                                                                ttATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGa                                                                      <  1:1295772/71‑1 (MQ=255)

                                                                                                                                ttATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGa                                                                      >  2:1295772/1‑71 (MQ=255)

                                                                                                                                ttATTTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGTCGAGCCGCTTCAGCAAGAAACGccc  >  1:1325280/1‑139 (MQ=255)

CTCCATCGCTAGTTGAAGCACATTGCCGGATGCGACGCTTGCCACGTCTTATCCGGCCTACGAATACTATGGATTAACTTCGCGTAGTTC‑GGATAAGGCGTTCGCGCCGCATCCGACAATAAACACCTTATCTACAACTTCAGAATTTCTTTCACAAACGGAATGGTCAGCTTACGTTGCGCGGTAATCGACGCACGATCCAACTGATCCAACGTCATAAATAGCGTGCGCATTTCTCTGTCGAGCCGCTTCAGCAAGAAACGCCC  >  NC_000913/2617944‑2618209

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A