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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,017,296	T→C	intergenic (+104/‑37)	udp → / → rmuC	uridine phosphorylase/DNA recombination protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,017,296	0	T	C	100.0%	132.5 / NA	34	intergenic (+104/‑37)	udp/rmuC	uridine phosphorylase/DNA recombination protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/13); total (21/13)

GTGAAAATCGTGGTGGAAGCGGCGCGTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCTATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGCCGAGCAATTAGCTGA  >  NC_000913/4017154‑4017442

gTGAAAATCGTGGTGGAAGCGGCGCGTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTtgtg                                                                                                                                            <  2:187900/151‑1 (MQ=255)

   aaaaTCGTGGTGGAAGCGGCGCGTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCgg                                                                                                                                         >  1:544287/1‑151 (MQ=255)

    aaaTCGTGGTGGAAGCGGCGCGTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCggg                                                                                                                                        >  1:549438/1‑151 (MQ=255)

     aaTCGTGGTGGAAGCGGCGCGTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGt                                                                                                                                       >  1:253137/1‑151 (MQ=255)

                      cgcgTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCagg                                                                                                                       >  1:106938/1‑150 (MQ=255)

                             tcTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTtg                                                                                                               >  1:490013/1‑151 (MQ=255)

                               tgctgTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTtgtg                                                                                                             >  1:165901/1‑151 (MQ=255)

                                gctgTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTtgtg                                                                                                             <  1:470786/150‑1 (MQ=255)

                                gctgTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTtgtg                                                                                                             <  1:552038/150‑1 (MQ=255)

                                             tctcCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCAt                                                                                               >  2:407923/1‑151 (MQ=255)

                                                   gTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGttt                                                                                          >  1:426240/1‑150 (MQ=255)

                                                                 gcgTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGt                                                                           <  2:165903/151‑1 (MQ=255)

                                                                  cgTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGtt                                                                          >  2:123666/1‑151 (MQ=255)

                                                                           ttttGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGgtgt                                                                 >  2:566012/1‑151 (MQ=255)

                                                                             ttGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTgg                                                               >  2:388147/1‑151 (MQ=255)

                                                                                tATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCa                                                             >  1:558121/1‑150 (MQ=255)

                                                                                   ttttGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATtg                                                         >  2:460491/1‑151 (MQ=255)

                                                                                      tGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATtggct                                                      >  1:589520/1‑151 (MQ=255)

                                                                                        cGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATtggctgg                                                    >  2:423499/1‑151 (MQ=255)

                                                                                        cGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATtggctgg                                                    >  2:349836/1‑151 (MQ=255)

                                                                                                  cGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGcc                                           >  2:232839/1‑150 (MQ=255)

                                                                                                       gAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTAt                                     <  2:129065/151‑1 (MQ=255)

                                                                                                                    aaCTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCgcagc                        >  2:77590/1‑151 (MQ=255)

                                                                                                                      cTGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCgcagca                       <  1:487209/150‑1 (MQ=255)

                                                                                                                       tGGACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCaa                      >  1:154352/1‑150 (MQ=255)

                                                                                                                        ggACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCaaa                     <  2:641010/150‑1 (MQ=255)

                                                                                                                        ggACGTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCaa                      <  2:106941/149‑1 (MQ=255)

                                                                                                                            gTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGcc                <  2:394249/151‑1 (MQ=255)

                                                                                                                            gTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGcc                >  1:534877/1‑151 (MQ=255)

                                                                                                                            gTTTGTACAGCACAATTCCATTTTGTGCGGGTAAGTTGTTGAGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGcc                >  1:13097/1‑151 (MQ=255)

                                                                                                                                     gCACAATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGCCGAGCAATTa       <  2:228565/151‑1 (MQ=255)

                                                                                                                                      cacaATTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGCCGAGCAATTAg      <  1:323884/151‑1 (MQ=255)

                                                                                                                                         aaTTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGCCGAGCAATTAGCTg   <  2:31055/151‑1 (MQ=255)

                                                                                                                                          aTTCCATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGCCGAGCAATTAGCTGa  <  1:596870/151‑1 (MQ=255)

GTGAAAATCGTGGTGGAAGCGGCGCGTCGTCTGCTGTAATTCTCTTCTCCTGTCTGAAGGCCGACGCGTTCGGCCTTTTGTATTTTTGCGTAGCGCCTCGCAGGAAATGCCTTTCCAACTGGACGTTTGTACAGCACAATTCTATTTTGTGCGGGTAAGTTGTTGCGTCAGGAGGCGTTGTGGATTTCTCAATCATGGTTTACGCAGTTATTGCGTTGGTGGGTGTGGCAATTGGCTGGCTGTTTGCCAGTTATCAACATGCGCAGCAAAAAGCCGAGCAATTAGCTGA  >  NC_000913/4017154‑4017442

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A