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
A2 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	977,104	T→C	37.5%	I681V (ATA→GTA)	dcp ←	dipeptidyl carboxypeptidase II

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	977,104	0	T	C	37.5%	46.3 / 55.9	88	I681V (ATA→GTA)	dcp	dipeptidyl carboxypeptidase II
Reads supporting (aligned to +/- strand): ref base T (20/35); new base C (20/13); total (40/48)
Fisher's exact test for biased strand distribution p-value = 4.58e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.85e-01

CTGGCCTGGCGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTCGA  >  minE/977061‑977165

ctggcctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATc                                      >  1:2650940/1‑69 (MQ=255)

ctggcctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATc                                      >  1:3389798/1‑69 (MQ=255)

ctggcctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATc                                      >  1:2080090/1‑69 (MQ=255)

ctggcctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATc                                      >  1:2057722/1‑69 (MQ=255)

ctggcctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATc                                      >  1:3226403/1‑69 (MQ=255)

ctggcctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATc                                      >  1:2268881/1‑69 (MQ=255)

     ctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCa                                  >  1:1540257/1‑68 (MQ=255)

     ctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:1348333/1‑69 (MQ=255)

     ctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:1451891/1‑69 (MQ=255)

     ctggcGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:3332064/1‑69 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAAt                              <  1:206769/67‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAAt                              <  1:605498/67‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAAt                              <  1:1902026/67‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:2949963/69‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:2412904/69‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:1774295/69‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:2057198/69‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:701054/69‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:2251390/69‑1 (MQ=255)

          gATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTGCAAGCCACGATGTTGCAGCATCGGCATAATCt                            <  1:1747699/69‑1 (MQ=255)

            tatCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTa                          <  1:582138/69‑1 (MQ=255)

            tatCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTa                          <  1:1440134/69‑1 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:3071915/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:3195469/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:2268136/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:2279783/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:2763823/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:2644237/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:2042010/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:3417143/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:419573/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:2082143/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:1808718/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:639483/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:655324/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:991024/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:707223/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:123151/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:838741/4‑69 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAg                         >  1:2441352/4‑68 (MQ=255)

              atccAGGCCAGCCATTGGTGGTGTTTATACGTTCAAGCCACGACGTTGCAGCATCGGCATAATCTGAgg                        >  1:3172878/4‑69 (MQ=255)

              atccAGGCCAGACATTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAgg                        >  1:498543/4‑69 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:2543852/36‑1 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:854040/36‑1 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:2874971/36‑1 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:3090999/36‑1 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:3166004/36‑1 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:3184667/36‑1 (MQ=255)

                tcAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGc                                                       <  1:2345541/36‑1 (MQ=255)

                    gccagccaTTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAAt                              <  1:793021/57‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTTAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:2372042/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:1280886/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:3309619/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:2133516/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:1873280/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:1690549/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:2284191/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:307273/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:249590/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:1179914/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:2782952/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:87416/69‑1 (MQ=255)

                       agccaTTGGTGGTGTTTATACGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTGAGGTGCCTTAcc               <  1:985959/69‑1 (MQ=255)

                            ttGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:2735423/69‑1 (MQ=255)

                            ttGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:1233445/69‑1 (MQ=255)

                            ttGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:1125326/69‑1 (MQ=255)

                            ttGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:2097734/69‑1 (MQ=255)

                            ttGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:2907230/69‑1 (MQ=255)

                            ttGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:2203875/69‑1 (MQ=255)

                              ggtggtGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCAt        >  1:1078771/1‑69 (MQ=255)

                              ggtggtGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCAt        >  1:945376/1‑69 (MQ=255)

                              ggtggtGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCAt        >  1:402142/1‑69 (MQ=255)

                              ggtggtGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCAt        >  1:2897498/1‑69 (MQ=255)

                                  gtgtTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTc    <  1:255846/69‑1 (MQ=255)

                                  gtgtTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTc    <  1:827582/69‑1 (MQ=255)

                                    gtTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTCGa  <  1:3203059/69‑1 (MQ=255)

                                    gtTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTCGa  <  1:2008964/69‑1 (MQ=255)

                                    gtTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTCGa  <  1:2110130/69‑1 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:1459139/1‑35 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:2932092/1‑35 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:53150/1‑35 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:1865936/1‑35 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:2196503/1‑35 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCAt                                 >  1:2567121/1‑35 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:1620832/58‑1 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:2420964/58‑1 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:1827515/58‑1 (MQ=255)

                                       tataTGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGcc          <  1:1062428/58‑1 (MQ=255)

                                           tGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTc    <  1:764160/60‑1 (MQ=255)

CTGGCCTGGCGATATCTCAGGCCAGCCATTGGTGGTGTTTATATGTTCAAGCCACGATGTTGCAGCATCGGCATAATCTTAGGTGCCTTACCGCGCCATTGTCGA  >  minE/977061‑977165

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A