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	1,252,961	A→G	A632A (GCA→GCG)	dhaR →	dhaKLM operon transcription activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,252,961	0	A	G	100.0%	179.4 / NA	51	A632A (GCA→GCG)	dhaR	dhaKLM operon transcription activator
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (26/25); total (26/25)

TTTGCGGAAGTTGAAAAAGAGGCAATTATTAACGCAGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCAGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCTTGTCTATCCCGCACTTAAAAGCTGA  >  NC_000913/1252827‑1253095

tttGCGGAAGTTGAAAAAGAGGCAATTATTAACGCAGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGc                                                                                                                                    >  2:459994/1‑139 (MQ=255)

tttGCGGAAGTTGAAAAAGAGGCAATTACTAACGCAGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGc                                                                                                                                    <  2:820638/139‑1 (MQ=255)

  tGCGGAAGTTGAAAAAGAGGCAATTATTAACGCAGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAg                                                                                                                                  >  1:102437/1‑139 (MQ=255)

      gAAGTTGAAAAAGAGGCAATTATTAACGCAGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTa                                                                                                                              <  2:1181526/139‑1 (MQ=255)

                                   aGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGAtt                                                                                                 >  2:442245/1‑139 (MQ=255)

                                    gCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGAttt                                                                                                >  1:1007625/1‑139 (MQ=255)

                                     ccccGGTCACAGGCGGTCGCATTAAGGAAATGTCGGCTTTCCTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTc                                                                                               >  1:1303669/1‑139 (MQ=255)

                                     cccAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTc                                                                                               >  1:94893/1‑139 (MQ=255)

                                     cccAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTc                                                                                               >  2:113139/1‑139 (MQ=255)

                                       cAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTg                                                                                             <  2:1109286/139‑1 (MQ=255)

                                       cAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTg                                                                                             <  2:1007625/139‑1 (MQ=255)

                                        aGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGa                                                                                            <  2:94893/139‑1 (MQ=255)

                                          gTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATa                                                                                          <  1:459994/139‑1 (MQ=255)

                                               aGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGcc                                                                                                                        >  1:262838/1‑104 (MQ=255)

                                               aGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGcc                                                                                                                        <  2:262838/104‑1 (MQ=255)

                                                 gCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCaga                                                                                   <  1:442245/139‑1 (MQ=255)

                                                   ggTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCGGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGt                                                                                 <  2:1303669/139‑1 (MQ=255)

                                                    gTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATa                                                                                          >  2:1349089/1‑129 (MQ=255)

                                                    gTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATa                                                                                          <  1:1349089/129‑1 (MQ=255)

                                                    gTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTg                                                                                >  2:654429/1‑139 (MQ=255)

                                                    gTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTg                                                                                <  2:102437/139‑1 (MQ=255)

                                                    gTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTg                                                                                <  1:113139/139‑1 (MQ=255)

                                                       gCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATc                                                                             <  1:654429/139‑1 (MQ=255)

                                                                     tCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGt                                                                                                                    <  2:595801/86‑1 (MQ=255)

                                                                     tCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGt                                                                                                                    >  1:595801/1‑86 (MQ=255)

                                                                             aCTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATc                                                                                      >  1:841727/1‑108 (MQ=255)

                                                                             aCTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATc                                                                                      <  2:841727/108‑1 (MQ=255)

                                                                                  ggATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGaaa                                                                                                      >  1:1343893/1‑87 (MQ=255)

                                                                                  ggATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGaaa                                                                                                      <  2:1343893/87‑1 (MQ=255)

                                                                                  ggATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACa                                                  >  1:1261037/1‑139 (MQ=255)

                                                                                  ggATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACa                                                  <  2:1261037/139‑1 (MQ=255)

                                                                                   gATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCaga                                                                                   >  1:622150/1‑105 (MQ=255)

                                                                                   gATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCaga                                                                                   <  2:622150/105‑1 (MQ=255)

                                                                                       ggCCGCACTACGCTGTGGCGG‑AAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTc                                            >  1:1309005/1‑139 (MQ=255)

                                                                                        gCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCaga                                                                                   <  2:22330/100‑1 (MQ=255)

                                                                                        gCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCaga                                                                                   >  1:22330/1‑100 (MQ=255)

                                                                                            cACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGTAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCa                                        >  1:381786/1‑139 (MQ=255)

                                                                                            cACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGTAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCa                                        <  2:381786/139‑1 (MQ=255)

                                                                                                      tgGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATg                                                                                                                 >  1:541204/1‑56 (MQ=255)

                                                                                                      tgGCGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATg                                                                                                                 <  2:541204/56‑1 (MQ=255)

                                                                                                         cGGAAAATGAAGCAACATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCt                           >  2:44090/1‑139 (MQ=255)

                                                                                                                tGAAGCAACATAGCATTGATGCGGGGCAGTTTAAGCGcc                                                                                                                        <  1:522233/39‑1 (MQ=255)

                                                                                                                tGAAGCAACATAGCATTGATGCGGGGCAGTTTAAGCGcc                                                                                                                        >  2:522233/1‑39 (MQ=255)

                                                                                                                        cATGGCATTGATGCGGGGCATTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCa                                        <  1:977346/111‑1 (MQ=255)

                                                                                                                        cATGGCATTGATGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCa                                        >  2:977346/1‑111 (MQ=255)

                                                                                                                                  aTGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACa                                                  <  2:934836/91‑1 (MQ=255)

                                                                                                                                  aTGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACa                                                  >  1:934836/1‑91 (MQ=255)

                                                                                                                                  aTGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCTTGTCTATCCCg                <  2:937180/125‑1 (MQ=255)

                                                                                                                                  aTGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCTTGTCTATCCCg                >  1:937180/1‑125 (MQ=255)

                                                                                                                                  aTGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCTTGTCTATCCCGCACTTAAAAGCTGa  >  2:142158/1‑139 (MQ=255)

                                                                                                                                  aTGCGGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCTTGTCTATCCCGCACTTAAAAGCTGa  >  1:628264/1‑139 (MQ=255)

TTTGCGGAAGTTGAAAAAGAGGCAATTATTAACGCAGCCCAGGTCACAGGCGGTCGCATTCAGGAAATGTCGGCTTTACTTGGGATCGGCCGCACTACGCTGTGGCGGAAAATGAAGCAACATGGCATTGATGCAGGGCAGTTTAAGCGCCGGGTATGAAAGACAGAAACGATTTCTGATACATCAGAGTGATCTGTATTTCATTCCGGCGCACGCTAACAATTTTCAGCATCGTTTAAGGGCTTGTCTATCCCGCACTTAAAAGCTGA  >  NC_000913/1252827‑1253095

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