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	521,195	C→T	31.1%	G405G (GGC→GGT)	uvrB →	excinulease of nucleotide excision repair, DNA damage recognition component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	521,195	0	C	T	31.1%	69.1 / 36.3	77	G405G (GGC→GGT)	uvrB	excinulease of nucleotide excision repair, DNA damage recognition component
Reads supporting (aligned to +/- strand): ref base C (24/29); new base T (16/8); total (40/37)
Fisher's exact test for biased strand distribution p-value = 9.21e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01

ATTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCGATTATCGAAGT  >  minE/521132‑521254

aTTAGCGCCGCAAACCATCTATGTTTCGGCTACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:1984693/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:2275867/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:2677465/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:750345/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:3165191/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:1906672/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:1702874/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGa                                                        <  1:493073/69‑1 (MQ=255)

aTTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGa                                                        <  1:1677057/69‑1 (MQ=255)

 ttAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGTGGCGa                                                        <  1:178057/68‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:2306422/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:2529395/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     >  1:2847099/1‑69 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:2067544/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:3147917/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:3335607/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     >  1:456523/1‑69 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:152694/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     >  1:1470977/1‑69 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:1018799/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:686084/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:73203/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     >  1:1204177/1‑69 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     >  1:1010451/1‑69 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:1070419/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:1057980/69‑1 (MQ=255)

   aGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtg                                                      >  1:58221/1‑68 (MQ=255)

        cgcAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGtggtgg                                                <  1:3400535/69‑1 (MQ=255)

        cgcAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGtggtgg                                                <  1:2399434/69‑1 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:798539/1‑69 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:2652956/1‑69 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:3166761/1‑69 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:3255688/1‑69 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:419468/1‑69 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:2198193/1‑69 (MQ=255)

              ccATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAgg                                          >  1:185441/1‑69 (MQ=255)

                ccatATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAggtg                                        >  1:3287103/4‑69 (MQ=255)

                             cGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCg                           <  1:129953/69‑1 (MQ=255)

                             cGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCg                           <  1:2725472/69‑1 (MQ=255)

                              gACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCg                           <  1:2700059/68‑1 (MQ=255)

                                 gCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGAtgt                                                     <  1:1247770/39‑1 (MQ=255)

                                        aaTTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGTATCAGGTGGTGCGTCCAACCGGATTg                      >  1:3154794/1‑63 (MQ=255)

                                        aaTTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTg                      >  1:2543399/1‑63 (MQ=255)

                                        aaTTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTg                      >  1:3080969/1‑63 (MQ=255)

                                        aaTTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGAc                <  1:3092860/69‑1 (MQ=255)

                                         aTTACGAGCTGGAAAATTCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGAc                >  1:3100249/1‑68 (MQ=255)

                                         aTTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGAc                >  1:566955/1‑68 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCg                           >  1:2475879/1‑54 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTg                  <  1:2507394/63‑1 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTg                  <  1:2279542/63‑1 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTg                  <  1:160080/63‑1 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTg                  <  1:3328693/63‑1 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCg             >  1:1969179/1‑68 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCg             >  1:1909549/1‑68 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCg             >  1:1700599/1‑68 (MQ=255)

                                            aCGAGCTGGAAAAATCCGGCGGAGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCg             >  1:584152/1‑68 (MQ=255)

                                             cGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTg                  <  1:2956113/62‑1 (MQ=255)

                                                   ggAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCGATTATCGa     <  1:2305173/69‑1 (MQ=255)

                                                   ggAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCGATTATCGa     <  1:1571880/69‑1 (MQ=255)

                                                   gcaaaaaTCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCGATTATCGa     <  1:2171184/67‑1 (MQ=255)

                                                    gAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCGATTATCGa     <  1:3122220/68‑1 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAg   >  1:115720/1‑68 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:3328046/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:404286/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:2653914/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:1359588/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:1946963/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:134812/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:3153401/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:2789993/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:686778/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:716308/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:125427/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:2126507/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGAATATCGAAGt  >  1:3057018/1‑69 (MQ=255)

                                                      aaaaTCCGGTGGCGATGTGGTGGAGCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:1837658/1‑69 (MQ=255)

                                                      aaaaTCAGGTGGCGATGTGGTGGATCAGGTGGTGCGTCCAACAGGCTTACTCGACCCGATTATCGAAGt  >  1:2547/1‑69 (MQ=255)

ATTAGCGCCGCAAACCATCTATGTTTCGGCGACGCCGGGTAATTACGAGCTGGAAAAATCCGGCGGCGATGTGGTGGATCAGGTGGTGCGTCCAACCGGATTGCTTGACCCGATTATCGAAGT  >  minE/521132‑521254

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