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
A7 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,073,732	C→T	A94T (GCG→ACG)	rutA ←	pyrimidine oxygenase, FMN‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,073,732	0	C	T	100.0%	137.3 / NA	43	A94T (GCG→ACG)	rutA	pyrimidine oxygenase, FMN‑dependent
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/22); total (21/22)

ACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGCCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATT  >  NC_000913/1073605‑1073867

aCGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCa                                                                                                                              >  2:1502864/1‑139 (MQ=255)

          cGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                    <  1:254533/139‑1 (MQ=255)

          cGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                    >  2:791342/1‑139 (MQ=255)

               aaaCGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACt                                                                                                               <  2:938928/139‑1 (MQ=255)

                     ccgccAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGccc                                                                                                                                   >  2:1312644/1‑113 (MQ=255)

                     ccgccAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGccc                                                                                                                                   <  1:1312644/113‑1 (MQ=255)

                                      gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGcc                                                                                                                               >  2:1350773/1‑100 (MQ=255)

                                      gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGcc                                                                                                                               <  1:1350773/100‑1 (MQ=255)

                                      gATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCa                                                                                        >  1:1009169/1‑139 (MQ=255)

                                                     aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACt                                                                                          >  2:952885/1‑122 (MQ=255)

                                                     aCGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAATGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACt                                                                                          <  1:952885/122‑1 (MQ=255)

                                                        ggCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                      <  1:119364/139‑1 (MQ=255)

                                                         gCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCAc                                                                     <  1:199674/139‑1 (MQ=255)

                                                              gaTTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGt                                                                >  1:290897/1‑139 (MQ=255)

                                                                               ttAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGc                                               <  1:1316203/139‑1 (MQ=255)

                                                                                tAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcg                                              <  2:290897/139‑1 (MQ=255)

                                                                                 aaGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcga                                             <  1:10458/139‑1 (MQ=255)

                                                                                 aaGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGACACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTATTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcga                                             >  2:1078926/1‑139 (MQ=255)

                                                                                    gTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcgaaat                                          <  2:1009169/139‑1 (MQ=255)

                                                                                       gcagcaGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCa                                                                                        <  1:737252/90‑1 (MQ=255)

                                                                                       gcagcaGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCa                                                                                        >  2:737252/1‑90 (MQ=255)

                                                                                        cagcagTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTg                                                                                  >  2:617813/1‑95 (MQ=255)

                                                                                        cagcagTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTg                                                                                  <  1:617813/95‑1 (MQ=255)

                                                                                             gTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGt                                 >  2:1223768/1‑139 (MQ=255)

                                                                                              tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                      <  1:816428/69‑1 (MQ=255)

                                                                                              tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTtgt                                                                                                      >  2:816428/1‑69 (MQ=255)

                                                                                              tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTa                                >  1:1460848/1‑139 (MQ=255)

                                                                                              tGGCGTAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTa                                >  2:1578523/1‑139 (MQ=255)

                                                                                                   tAAATCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCt                           >  2:1326268/1‑139 (MQ=255)

                                                                                                     aaTCTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTcc                         >  2:365220/1‑139 (MQ=255)

                                                                                                        cTGAATGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCt                      <  2:1460848/139‑1 (MQ=255)

                                                                                                             tGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                      >  1:305385/1‑86 (MQ=255)

                                                                                                             tGCGCGAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCa                                                                      <  2:305385/86‑1 (MQ=255)

                                                                                                                gcgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTg                 <  2:730671/136‑1 (MQ=255)

                                                                                                                gcgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTg                 >  1:730671/1‑136 (MQ=255)

                                                                                                                 cgAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGcaca             >  1:733005/1‑139 (MQ=255)

                                                                                                                  gAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                    >  2:489701/1‑35 (MQ=255)

                                                                                                                  gAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGaa                                                                                                                    <  1:489701/35‑1 (MQ=255)

                                                                                                                  gAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACaa            <  1:365220/139‑1 (MQ=255)

                                                                                                                  gAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACaa            <  1:1223768/139‑1 (MQ=255)

                                                                                                                  gAGGTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCCCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACaa            <  2:1005151/139‑1 (MQ=255)

                                                                                                                     gTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcga                                             >  2:303087/1‑103 (MQ=255)

                                                                                                                     gTCACGGCCGTCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGcga                                             <  1:303087/103‑1 (MQ=255)

                                                                                                                            ccgtcAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTAtt  <  1:1578523/139‑1 (MQ=255)

ACGAGGTTGACGCCAAAACGCCCGCCAGAGATGGAGTCGATGGTTGCGGCCATACGGGCGACGATTGCCGGAGGTAACGTTAAGGTGGCAGCAGTGGCGTAAATCTGAATGCGCGAGGTCACGGCCGCCAGCCCCGCCATCAAGGTGAACGACTCAAGGTTGTGATCCCAGAACTCAGTTTTGCCGCCAAAGCCACGCAGTTTGATCATCGACAGGGCGAAATCGAAATGGTAGTGCTCCGCTTTTTGCACAATGGCTTTATT  >  NC_000913/1073605‑1073867

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