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	529,055	(T)_8→7	pseudogene (416/491 nt)	ybbD →	pseudogene

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	529,048	0	T	.	100.0%	167.8 / NA	38	pseudogene (409/491 nt)	ybbD	pseudogene
Reads supporting (aligned to +/- strand): ref base T (0/0); new base . (20/18); total (20/18)

GGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCGTA  >  NC_000913/528914‑529177

gggTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCttttt                                                                                                                               >  1:89717/1‑139 (MQ=255)

      gTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCtttttttgttg                                                                                                                         >  1:394219/1‑135 (MQ=255)

       tttAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTgg                                                                                                                       <  1:375397/139‑1 (MQ=255)

           aGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGaa                                                                                                                   >  2:407116/1‑139 (MQ=255)

               aaCATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTa                                                                                                               >  2:410656/1‑139 (MQ=255)

               aaCATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTa                                                                                                               >  1:150514/1‑139 (MQ=255)

                         gTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCa                                                                                                     <  1:270683/139‑1 (MQ=255)

                                              gCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTgg                                                                                >  1:236798/1‑139 (MQ=255)

                                                gAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAAtt                                                                                                                <  1:93456/105‑1 (MQ=255)

                                                gAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAAtt                                                                                                                >  2:93456/1‑105 (MQ=255)

                                                gAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAg                                                                              <  1:209182/139‑1 (MQ=255)

                                                     tCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGa                                                                         <  2:89972/139‑1 (MQ=255)

                                                                     tCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTtgtg                                                         <  1:410656/139‑1 (MQ=255)

                                                                       cAGATACAAAAAAAGTGCGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCa                                                       <  2:233320/139‑1 (MQ=255)

                                                                        aGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCa                                                       >  2:446559/1‑138 (MQ=255)

                                                                        aGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCa                                                       <  1:446559/138‑1 (MQ=255)

                                                                                         ggtgTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTa                                     <  2:151559/139‑1 (MQ=255)

                                                                                         ggtgTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTa                                     <  2:236798/139‑1 (MQ=255)

                                                                                          gtgtAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTaa                                    >  1:362277/1‑139 (MQ=255)

                                                                                                 tatGGTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTa                             <  2:150514/139‑1 (MQ=255)

                                                                                                    ggTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGa                                                                               <  1:394706/86‑1 (MQ=255)

                                                                                                    ggTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGa                                                                               >  2:394706/1‑86 (MQ=255)

                                                                                                    ggTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATcc                          >  2:136370/1‑139 (MQ=255)

                                                                                                     gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATccc                         >  1:318478/1‑139 (MQ=255)

                                                                                                     gTAAGATACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATccc                         >  2:347514/1‑139 (MQ=255)

                                                                                                           tACCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCg                   >  2:153321/1‑139 (MQ=255)

                                                                                                            aCCAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGa                  >  2:254161/1‑139 (MQ=255)

                                                                                                             ccAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGaa                 >  1:306236/1‑139 (MQ=255)

                                                                                                              cAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTtata                                                                                           <  2:439214/64‑1 (MQ=255)

                                                                                                              cAGGGCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTtata                                                                                           >  1:439214/1‑64 (MQ=255)

                                                                                                                  gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGc                                                              <  1:49070/89‑1 (MQ=255)

                                                                                                                  gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGc                                                              >  2:49070/1‑89 (MQ=255)

                                                                                                                  gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATcc                          <  2:91415/125‑1 (MQ=255)

                                                                                                                  gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATcc                          >  1:91415/1‑125 (MQ=255)

                                                                                                                  gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtcgt            <  2:394219/139‑1 (MQ=255)

                                                                                                                  gCAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtcgt            <  1:252122/139‑1 (MQ=255)

                                                                                                                   cAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGGTTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtcgtc           >  1:357795/1‑139 (MQ=255)

                                                                                                                   cAAGGGGATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAgtcgtc           <  1:153321/139‑1 (MQ=255)

                                                                                                                      ggggATGGTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAAc        >  1:282829/1‑139 (MQ=255)

                                                                                                                            ggTGTAAACC‑TTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCGTa  >  2:166851/1‑139 (MQ=255)

GGGTAGGTTTAAGAAAACATTGACAGTGAGGGCCAGGGAACAAGTGGCGAAAATCGTATCAAAGAATGATCCAGATACAAAAAAAGTGTGGTGTAAATATGGTAAGATACCAGGGCAAGGGGATGGTGTAAACCTTTTTTTTGTTGGTGAAATTAATGTTACGCATTATTTTATAACAAATATTGGAGCTGGATTGCCTGATGCTTGTGCAGAGTAATTGCTTGAATTAAGAGTCTATCCCATATCGAAGTCGTCAACTTCGTA  >  NC_000913/528914‑529177

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A