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	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,792,267	C→T	155 (TAG→TAA)	nlpC ←	putative C40 clan peptidase lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,792,267	0	C	T	100.0%	97.7 / NA	31	155 (TAG→TAA)	nlpC	putative C40 clan peptidase lipoprotein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (16/15); total (16/15)

ATCCTGATTATAAACGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATACTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGATAAATTGGTTGTTGGTATCGTAAATACCTACATGC  >  NC_000913/1792157‑1792390

aTCCTGATTATAAACGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAAtttt                                                                                                 >  2:73978/1‑139 (MQ=255)

  ccTGATTATAAACGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTc                                                                                               <  1:418576/139‑1 (MQ=255)

      aTTATAAACGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGcc                                                                                           >  2:429612/1‑139 (MQ=255)

      aTTATAAACGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGcc                                                                                           >  1:375863/1‑139 (MQ=255)

           aaaCGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAAt                                                                                        <  1:496555/137‑1 (MQ=255)

           aaaCGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAAt                                                                                        >  2:496555/1‑137 (MQ=255)

             aCGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGAc                                                                                    <  2:421177/139‑1 (MQ=255)

                 ataatCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCt                                                                                              <  1:33166/125‑1 (MQ=255)

                 ataatCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCt                                                                                              <  1:268018/125‑1 (MQ=255)

                 ataatCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCt                                                                                              >  2:33166/1‑125 (MQ=255)

                 ataatCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCt                                                                                              >  2:268018/1‑125 (MQ=255)

                   aatCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATc                                                                              <  1:420872/139‑1 (MQ=255)

                                                  actactGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTa                                               <  2:375863/139‑1 (MQ=255)

                                                      ctGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAgg                                           <  1:429612/139‑1 (MQ=255)

                                                         tATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGt                                        >  1:307129/1‑139 (MQ=255)

                                                           ttCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAgg                                                                      <  1:330523/107‑1 (MQ=255)

                                                           ttCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAgg                                                                      >  2:330523/1‑107 (MQ=255)

                                                           ttCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTgg                                      >  2:402310/1‑139 (MQ=255)

                                                            tCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGa                                     <  2:330862/139‑1 (MQ=255)

                                                              aGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCtt                                                      >  2:1842/1‑120 (MQ=255)

                                                              aGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCtt                                                      <  1:1842/120‑1 (MQ=255)

                                                              aGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGATa                                   >  2:333839/1‑139 (MQ=255)

                                                                gAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGATaaa                                 >  1:391626/1‑139 (MQ=255)

                                                                            ggCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCt                                                                                              <  2:320975/66‑1 (MQ=255)

                                                                            ggCGATGTATCATCGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCt                                                                                              >  1:320975/1‑66 (MQ=255)

                                                                                      catcGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGc                                                    <  2:38140/98‑1 (MQ=255)

                                                                                      catcGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGc                                                    >  1:38140/1‑98 (MQ=255)

                                                                                        tcGCCGTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGATAAATTGGTTGTTGGTATCGTAAATAcc         >  2:150749/1‑139 (MQ=255)

                                                                                             gTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCaa                                                                                         >  1:761130/1‑54 (MQ=255)

                                                                                             gTCCATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCaa                                                                                         <  2:761130/54‑1 (MQ=255)

                                                                                               ccATTTTTCGACATATTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGATAAATTGGTTGTTGGTATCGTAAATACCTACATGc  <  1:150749/139‑1 (MQ=255)

ATCCTGATTATAAACGAATAATCCATTTACGGAATTTTTGTCTGCAAAATACTACTGTATTCAGGAGTAAATGGACGGCGATGTATCATCGCCGTCCATTTTTCGACATACTAGATTCGTCTCGCCTGCCAGAAATTTTTCTGCCAATAGACATTATCAAGTGAGGAACGCATCACTCCCTTGCTGGTAGAGGCGTGGATAAATTGGTTGTTGGTATCGTAAATACCTACATGC  >  NC_000913/1792157‑1792390

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