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 I2 R1	92	50.6	2362856	94.3%	2228173	111.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,401,103	G→A	T151T (ACC→ACT)	nuoF ←	NADH:ubiquinone oxidoreductase, chain F

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,401,103	0	G	A	100.0%	126.5 / NA	36	T151T (ACC→ACT)	nuoF	NADH:ubiquinone oxidoreductase, chain F
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/23); total (13/23)

TTCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCGGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCTTCCACCAGCAGGTGCGGCA  >  NC_000913/2400983‑2401233

ttCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa                                                                                                                  <  1:262825/139‑1 (MQ=255)

ttCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa                                                                                                                  <  2:870784/139‑1 (MQ=255)

      ggAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGgcgc                                                                                                            <  1:380178/139‑1 (MQ=255)

               tAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGgcg                                                                                                             >  2:999024/1‑129 (MQ=255)

               tAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGgcg                                                                                                             <  1:999024/129‑1 (MQ=255)

                 aCGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGc                                                                                                 >  2:978082/1‑139 (MQ=255)

                    cTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGc                                                                                              <  1:595745/139‑1 (MQ=255)

                     tGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCt                                                                                             <  1:170083/139‑1 (MQ=255)

                                    gATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCa                                                                              <  2:976272/139‑1 (MQ=255)

                                          gcgcCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAgg                                                                        <  1:331819/139‑1 (MQ=255)

                                           cgcCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGa                                                                       <  1:373341/139‑1 (MQ=255)

                                             cccTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa                                                                                                                  >  1:1169806/1‑94 (MQ=255)

                                             cccTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCa                                                                                                                  <  2:1169806/94‑1 (MQ=255)

                                               cTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg                                                                                                               >  1:937857/1‑95 (MQ=255)

                                               cTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg                                                                                                               <  2:937857/95‑1 (MQ=255)

                                                tGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATg                                                                  <  1:889586/139‑1 (MQ=255)

                                                     cGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGcc                                                             <  1:7710/139‑1 (MQ=255)

                                                       gTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCAc                                                           <  1:1008788/139‑1 (MQ=255)

                                                            gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg                                                                                                               >  1:110624/1‑82 (MQ=255)

                                                            gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACgg                                                                                                               <  2:110624/82‑1 (MQ=255)

                                                            gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCg                                                                                               <  2:310231/98‑1 (MQ=255)

                                                            gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCg                                                                                               >  1:310231/1‑98 (MQ=255)

                                                            gACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTaa                                                      >  2:312979/1‑139 (MQ=255)

                                                                  cAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTc                                                >  1:1123526/1‑139 (MQ=255)

                                                                       cgaaatcgaaaCCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAgcgc                                           >  2:733622/1‑139 (MQ=255)

                                                                         aaatcgaaaCCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCaa                                         <  2:1123526/139‑1 (MQ=255)

                                                                                       tCCCATAATGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGc                           <  1:312979/139‑1 (MQ=255)

                                                                                             aaTGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATa                        <  1:347658/136‑1 (MQ=255)

                                                                                             aaTGTTTTTGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATa                        >  2:347658/1‑136 (MQ=255)

                                                                                                   tttGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCTTccacc               >  1:515335/1‑139 (MQ=255)

                                                                                                   tttGCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCTTccacc               <  2:126411/139‑1 (MQ=255)

                                                                                                      gCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACg                                                                            <  2:756474/75‑1 (MQ=255)

                                                                                                      gCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACg                                                                            >  1:756474/1‑75 (MQ=255)

                                                                                                      gCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCtt                    >  2:206121/1‑131 (MQ=255)

                                                                                                      gCCAAGCAGACCCGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCtt                    <  1:206121/131‑1 (MQ=255)

                                                                                                                cccGCTTCAGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCTTCCACCAGCAGGTGCGGCa  <  2:515335/139‑1 (MQ=255)

TTCCAGGGAGTTGATTAACGCTGTTTCTTCCCCGCAGATGTAGCGCCCTGCCCCGGTATGGACGAACAGTTCGAAATCGAAACCTGTTCCCATAATGTTTTTGCCAAGCAGACCCGCTTCGGTGGCTTCGGCAATGGCACGGCGCAGATTAACTGCCGCTTCGATATATTCGCCACGCAGGAAGATGTAGCCACGGTAAGCTTTCAGCGCAAACGCGGAGATGAGCATACCTTCCACCAGCAGGTGCGGCA  >  NC_000913/2400983‑2401233

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