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	531,656	G→A	A189V (GCG→GTG)	allS ←	allD operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	531,656	0	G	A	96.7%	86.8 / ‑4.0	30	A189V (GCG→GTG)	allS	allD operon transcriptional activator
Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (14/15); total (14/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.91e-01

CGCCAGATGGGCGGCGATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCGCTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTAAGGGATCAAGACTAAAGGTATTTGCCAGCGCCTCAGT  >  NC_000913/531520‑531768

cgccAGATGGGCGGCGATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACt                                                                                                                >  2:821624/1‑139 (MQ=255)

        gggCGGCGATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAg                                                                                                        <  1:562608/139‑1 (MQ=255)

         ggcggcGATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGc                                                                                                       <  1:736899/139‑1 (MQ=255)

            ggcgATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGc                                                                                                    <  1:981528/139‑1 (MQ=255)

             gcgATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGct                                                                                                   >  1:626121/1‑139 (MQ=255)

                                       aataatCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATcc                                                                         <  2:808671/139‑1 (MQ=255)

                                            tctcTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCcgccgc                                                                    >  1:295919/1‑139 (MQ=255)

                                                 ttttGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGa                                                               >  2:27377/1‑139 (MQ=255)

                                                          ggCAATCGCCAGGCGACGCGTTTGGTTAAGGTGTGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATccgc                                                                       <  2:789971/122‑1 (MQ=255)

                                                          ggCAATCGCCAGGCGACGCGTTTGGTTAAGGTGTGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATccgc                                                                       >  1:789971/1‑122 (MQ=255)

                                                          ggCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGcc                                                      >  2:390163/1‑139 (MQ=255)

                                                          ggCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGcc                                                      >  1:704006/1‑139 (MQ=255)

                                                          ggCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCAGCAACTGCACTTCTGTTAGCGACTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGcc                                                      >  1:640047/1‑139 (MQ=255)

                                                            cAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCAt                                                    <  2:626121/139‑1 (MQ=255)

                                                                cGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCa                                                <  1:775154/139‑1 (MQ=255)

                                                                         aCGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTa                                       <  2:295919/139‑1 (MQ=255)

                                                                          cgcgTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCGCTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTaa                                      <  2:704098/139‑1 (MQ=255)

                                                                          cgcgTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCAc                                               <  2:474836/130‑1 (MQ=255)

                                                                          cgcgTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCAc                                               >  1:474836/1‑130 (MQ=255)

                                                                          cgcgTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTaa                                      <  1:27377/139‑1 (MQ=255)

                                                                                        gTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTAAGGGATCAAGACTaa                        <  1:821624/139‑1 (MQ=255)

                                                                                           cGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAg                                                                                                        <  1:849804/56‑1 (MQ=255)

                                                                                           cGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAg                                                                                                        >  2:849804/1‑56 (MQ=255)

                                                                                            gggCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCAcc                                              <  1:929962/113‑1 (MQ=255)

                                                                                            gggCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCAcc                                              >  2:929962/1‑113 (MQ=255)

                                                                                                 cTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCAcc                                              <  2:1051692/108‑1 (MQ=255)

                                                                                                 cTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCAcc                                              >  1:1051692/1‑108 (MQ=255)

                                                                                                              tGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTAAg                                     <  2:432170/104‑1 (MQ=255)

                                                                                                              tGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTAAg                                     >  1:432170/1‑104 (MQ=255)

                                                                                                              tGACCGCCGGAAAGCGCCGCAACTGCACTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTAAGGGATCAAGACTAAAGGTATTTGCCAGCGCCTCAGt  >  2:516608/1‑139 (MQ=255)

CGCCAGATGGGCGGCGATTTTCGTTTCCATATCGGGAACAATAATCTCTTTTTGCCCTGGCAATCGCCAGGCGACGCGTTTGGTTAAGGTGCGGGCGCTGTCTTCAATATTGACCGCCGGAAAGCGCCGCAACTGCGCTTCTGTTAGCGGCTCTTCAACGTTCGCCAGCGGATGATCCGCCGCCATGACAAAGCGCCATTGCACCGATCCTAAGGGATCAAGACTAAAGGTATTTGCCAGCGCCTCAGT  >  NC_000913/531520‑531768

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 24 ≤` `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