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
A13 F1 I1 R1	86	24.1	1002126	98.1%	983085	121.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,628,576	A→G	intergenic (+29/+279)	nadR → / ← ettA	trifunctional protein: nicotinamide mononucleotide adenylyltransferase, ribosylnicotinamide kinase, transcriptional repressor/energy‑dependent translational throttle A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,628,576	0	A	G	100.0%	110.9 / NA	32	intergenic (+29/+279)	nadR/ettA	trifunctional protein: nicotinamide mononucleotide adenylyltransferase, ribosylnicotinamide kinase, transcriptional repressor/energy‑dependent translational throttle A
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/15); total (17/15)

ATATCGAATTTGTGCGGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTATAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAGGCTGTTGTAGACCGGAAACGGT  >  NC_000913/4628453‑4628710

atatCGAATTTGTGCAGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGtttttt                                                                                                                         >  2:428097/1‑139 (MQ=255)

    cGAATTTGTGCAGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTtgat                                                                                                                     <  1:428097/139‑1 (MQ=255)

     gAATTTGTGCGGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTtgatg                                                                                                                    >  1:72437/1‑139 (MQ=255)

      aaTTTGTGCGGGTCGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAACGGCGAGGTGTAAAATGAGGTTTTTtgatga                                                                                                                   >  1:399535/1‑139 (MQ=255)

           gtgCGGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGa                                                                                                              >  1:280638/1‑139 (MQ=255)

            tgCGGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGaa                                                                                                             >  2:214467/1‑139 (MQ=255)

               gggTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAAc                                                                                                          <  1:237603/139‑1 (MQ=255)

                             gATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAgg                                                                                            <  2:280638/139‑1 (MQ=255)

                                    aCAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAg                                                                                                                               >  2:422297/1‑97 (MQ=255)

                                    aCAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAg                                                                                                                               <  1:422297/97‑1 (MQ=255)

                                        tCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGAtt                                                                                 >  1:122466/1‑139 (MQ=255)

                                            ttCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAAc                                                                             <  2:303074/139‑1 (MQ=255)

                                                      gcgTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGaa                                                                   >  2:357267/1‑139 (MQ=255)

                                                       cgTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCgaga                                                                                   >  1:174369/1‑122 (MQ=255)

                                                       cgTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCgaga                                                                                   <  2:174369/122‑1 (MQ=255)

                                                         tGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTtgatg                                                                                                                    >  1:167353/1‑87 (MQ=255)

                                                         tGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTtgatg                                                                                                                    <  2:167353/87‑1 (MQ=255)

                                                                           tgatgGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCg                                              <  1:214467/139‑1 (MQ=255)

                                                                              tgGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCa                                           <  2:310758/139‑1 (MQ=255)

                                                                              tgGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCa                                           <  2:72437/139‑1 (MQ=255)

                                                                                 gggAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGa                                        >  2:491121/1‑139 (MQ=255)

                                                                                        gagaTAACCGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAg                                 <  1:496516/139‑1 (MQ=255)

                                                                                                cGTGATGAAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTaa                         >  2:376438/1‑139 (MQ=255)

                                                                                                  tgatgaAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAgg                       <  1:376438/139‑1 (MQ=255)

                                                                                                   gatgaAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAAc                                                                                                          <  2:27023/55‑1 (MQ=255)

                                                                                                   gatgaAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAAc                                                                                                          >  1:27023/1‑55 (MQ=255)

                                                                                                   gatgaAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAGGc                      >  1:464515/1‑139 (MQ=255)

                                                                                                     tgaAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAATCAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTaa                         <  2:280348/134‑1 (MQ=255)

                                                                                                     tgaAACTGCTCAAAGGCGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTaa                         >  1:280348/1‑134 (MQ=255)

                                                                                                                     cGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAgg                       <  1:364083/120‑1 (MQ=255)

                                                                                                                     cGAGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAgg                       >  2:364083/1‑120 (MQ=255)

                                                                                                                       aGGTGTAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAGGCTGTTGTAGACCGGAAACGgt  >  1:127697/1‑139 (MQ=255)

ATATCGAATTTGTGCGGGTTGAAGAGGAAGATTACGACAGTCGTTTCCTGCGCTGCGTGGAACTGGTGCGGGAGATGATGGGGGAGCAGAGATAACCGTGATGAAACTGCTCAAAGGCGAGGTATAAAATGAGTTTTTTTGATGAGTTGAAAACCTCTCTGGAAGAGGCTGTCGAGATTAAACAAGGTTTGAAAAAACCTGCACGGGTGACCCGCCACGAAATTGAGGATGCTAAGGCTGTTGTAGACCGGAAACGGT  >  NC_000913/4628453‑4628710

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 23 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A