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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	937,983	G→A	204 (TAG→TAA)	lolA →	lipoprotein chaperone

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	937,983	0	G	A	100.0%	106.1 / NA	34	204 (TAG→TAA)	lolA	lipoprotein chaperone
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/16); total (18/16)

TGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAGAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTGCTGGCTGCGGGGAAGCCGT  >  NC_000913/937862‑938114

tGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCa                                                                                                                    >  2:896579/1‑139 (MQ=255)

          cGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTACACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCt                                                                                                          >  1:667113/1‑139 (MQ=255)

            aTCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCg                                                                                                        >  2:4374/1‑139 (MQ=255)

            aTCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCg                                                                                                        <  1:896579/139‑1 (MQ=255)

                 cgcAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGAtttt                                                                                                   <  2:451765/139‑1 (MQ=255)

                      cagTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGAtttt                                                                                                   >  1:417364/1‑134 (MQ=255)

                      cagTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGAtttt                                                                                                   <  2:417364/134‑1 (MQ=255)

                      cagTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGa                                                                                              <  2:475964/139‑1 (MQ=255)

                      cagTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGACACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGa                                                                                              >  2:436981/1‑139 (MQ=255)

                                   aaaTCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCaa                                                                                 >  1:679786/1‑139 (MQ=255)

                                          aGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTgg                                                                          <  2:667113/139‑1 (MQ=255)

                                              aaaTGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGACACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCcgc                                                                      <  1:436981/139‑1 (MQ=255)

                                                           gATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCa                                                         <  2:679786/139‑1 (MQ=255)

                                                             tGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACtttt                                                                                    >  2:14385/1‑110 (MQ=255)

                                                             tGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACtttt                                                                                    <  1:14385/110‑1 (MQ=255)

                                                                aGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCtgagt                                                                                                                         <  2:951527/70‑1 (MQ=255)

                                                                aGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCtgagt                                                                                                                         >  1:951527/1‑70 (MQ=255)

                                                                aGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGaaaa                                                    >  2:508282/1‑139 (MQ=255)

                                                                                   ccgccgCAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGc                                 >  1:691749/1‑139 (MQ=255)

                                                                                      ccgcAAGGCGTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAg                              <  2:173854/139‑1 (MQ=255)

                                                                                               gTCACGGTAGATGATCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTg                     >  2:617801/1‑139 (MQ=255)

                                                                                                            atCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGataat                                                                                          >  1:568638/1‑57 (MQ=255)

                                                                                                            atCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGataat                                                                                          <  2:568638/57‑1 (MQ=255)

                                                                                                             tCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGca                                             <  2:466342/101‑1 (MQ=255)

                                                                                                             tCAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGca                                             >  1:466342/1‑101 (MQ=255)

                                                                                                              cAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGa                                                       >  2:217441/1‑90 (MQ=255)

                                                                                                              cAACGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGa                                                       <  1:217441/90‑1 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACtttt                                                                                    <  2:972875/59‑1 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACtttt                                                                                    >  1:972875/1‑59 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAAtt                                                  >  2:651364/1‑93 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAAtt                                                  <  1:651364/93‑1 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGcaca                                           <  2:846018/100‑1 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGcaca                                           >  1:846018/1‑100 (MQ=255)

                                                                                                                aCGTAAGTAAAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTGCTGGCTGCGGGGAAGcc    >  2:289237/1‑139 (MQ=255)

                                                                                                                  gtaagtaaAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTGCTGGCTGCGGGGAAGCCGt  >  2:582969/1‑139 (MQ=255)

TGGAGCAGGACGATCAGCGCAGCAGTTATCAACTGAAATCCCAGCAAAATGGGGCTGTGGATGCAGCGAAATTTACCTTCACCCCGCCGCAAGGCGTCACGGTAGATGATCAACGTAAGTAGAGGCACCTGAGTGAGCAATCTGTCGCTCGATTTTTCGGATAATACTTTTCAACCTCTGGCCGCGCGTATGCGGCCAGAAAATTTAGCACAGTATATCGGCCAGCAACATTTGCTGGCTGCGGGGAAGCCGT  >  NC_000913/937862‑938114

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A