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
A29 F30 I1 R1	26	45.9	1554102	99.2%	1541669	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,619,014	C→A	F262L (TTC→TTA)	deoA →	thymidine phosphorylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,619,014	0	C	A	97.2%	119.7 / ‑3.4	36	F262L (TTC→TTA)	deoA	thymidine phosphorylase
Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (19/16); minor base T (1/0); total (20/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.63e-01

TTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTCCTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACAAC  >  NC_000913/4618887‑4619146

ttGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGaa                                                                                                                          >  2:523140/1‑140 (MQ=255)

   ccGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAatat                                                                                                                       <  1:475916/140‑1 (MQ=255)

           aTTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGCACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAAccc                                                                                                               >  2:712677/1‑140 (MQ=255)

              gttgGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCcgcg                                                                                                            <  2:196181/140‑1 (MQ=255)

                    gTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGtt                                                                                                      <  1:623860/140‑1 (MQ=255)

                     tGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGttt                                                                                                     <  2:665332/140‑1 (MQ=255)

                     tGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGttt                                                                                                     >  2:629157/1‑140 (MQ=255)

                      ggCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCg                                                                                                                     <  2:362896/123‑1 (MQ=255)

                      ggCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCg                                                                                                                     >  1:362896/1‑123 (MQ=255)

                      ggCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGt                                                                                                                    >  2:768539/1‑124 (MQ=255)

                      ggCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGt                                                                                                                    <  1:768539/124‑1 (MQ=255)

                       gCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGa                                                                                                   >  2:482327/1‑140 (MQ=255)

                                  tGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATgg                                                                                        >  1:755940/1‑140 (MQ=255)

                                    gCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGgcg                                                                                      <  2:117126/140‑1 (MQ=255)

                                     cGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGgcgc                                                                                     <  1:482327/140‑1 (MQ=255)

                                     cGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGgcgc                                                                                     <  2:755940/140‑1 (MQ=255)

                                              caccGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTgg                                                                            >  2:569433/1‑140 (MQ=255)

                                                     ctgctCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCt                                                                     <  1:629157/140‑1 (MQ=255)

                                                        ctCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGAt                                                                  >  2:707928/1‑140 (MQ=255)

                                                                cATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCa                                                          <  1:569433/140‑1 (MQ=255)

                                                                     aTCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTg                                                     >  1:234975/1‑140 (MQ=255)

                                                                      tCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTgg                                                    <  2:234975/140‑1 (MQ=255)

                                                                         ggTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGa                                                 >  2:625110/1‑140 (MQ=255)

                                                                                gCCTCCAGTGCAGGTAACGCGGTTGTAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGa                                          >  2:255329/1‑140 (MQ=255)

                                                                                gCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGa                                          >  1:150669/1‑140 (MQ=255)

                                                                                          cAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTTCTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAgcg                                >  2:685900/1‑140 (MQ=255)

                                                                                             gTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAgcgcgc                             >  1:452015/1‑140 (MQ=255)

                                                                                               aaCGCGGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAgcgcgcgc                           >  2:740658/1‑140 (MQ=255)

                                                                                                  gcgGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAgc                                 >  2:106518/1‑131 (MQ=255)

                                                                                                  gcgGTTGAAGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAgc                                 <  1:106518/131‑1 (MQ=255)

                                                                                                          aGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAgg                <  1:740658/140‑1 (MQ=255)

                                                                                                          aGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAgg                <  1:532491/140‑1 (MQ=255)

                                                                                                          aGTTCGTGAAGCGGTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAgg                <  1:255329/140‑1 (MQ=255)

                                                                                                                       gTGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGCGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACaa   >  1:721431/1‑140 (MQ=255)

                                                                                                                        tGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACAAc  >  1:612568/1‑140 (MQ=255)

                                                                                                                        tGCAGTTACTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACAAc  >  1:48946/1‑140 (MQ=255)

TTGCCGAAGCGATTGTTGGCGTGGCTAACGGCGCTGGCGTGCGCACCACCGCGCTGCTCACCGACATGAATCAGGTACTGGCCTCCAGTGCAGGTAACGCGGTTGAAGTTCGTGAAGCGGTGCAGTTCCTGACGGGTGAATATCGTAACCCGCGTCTGTTTGATGTCACGATGGCGCTGTGCGTGGAGATGCTGATCTCCGGCAAACTGGCGAAAGATGACGCCGAAGCGCGCGCGAAATTGCAGGCGGTGCTGGACAAC  >  NC_000913/4618887‑4619146

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A