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
A31 F47 I1 R1	9	18.5	648674	91.9%	596131	144.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_vch_pgi	4,188,953	G→A	E1202K (GAA→AAA)	rpoC →	RNA polymerase, beta prime subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_vch_pgi	4,188,953	0	G	A	100.0%	52.1 / NA	18	E1202K (GAA→AAA)	rpoC	RNA polymerase, beta prime subunit
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (9/9); total (9/9)

GGCAATCCTGGCTGAAATCAGCGGTATCGTTTCCTTCGGTAAAGAAACCAAAGGTAAACGTCGTCTGGTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTGAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGTACAGGACGTATACCGTCTGCAGGGCGTTAAGATTAACG  >  NC_000913_3_vch_pgi/4188808‑4189097

ggCAATACGTGCTGGAATCAGCGGTATCGTTTCCTTCGGTAAAGAAACCAAAGGTAAACGTCGTCTGGTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAAc                                                                                                                                               <  2:305555/149‑1 (MQ=255)

           cTGAAATCAGCGGTATCGTTTCCTTCGGTAAAGAAACCAAAGGTAAACGTCGTCTGGTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACgt                                                                                                                                    <  2:7017/149‑1 (MQ=255)

                                 cTTCGGTACAGAAACCAAAGGTAAACCTCGTCTGGTTATCAACCCGGTAGACGGTAGCGATACGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAAGTAAACGTGTCGACAGAGGGGACGGAATTTCCGACGGTc                                                                                                              >  2:65978/1‑149 (MQ=255)

                                           gAAACCAAAGGTAAACGTCGTCTGGTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGcgcc                                                                                                    >  1:65681/1‑149 (MQ=255)

                                                         aCGTCGTCTGGTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATtctgc                                                                                      >  2:200035/1‑149 (MQ=255)

                                                                   gTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGACATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCgtgg                                                                            >  2:118093/1‑149 (MQ=255)

                                                                                        aGCAATCCGTACGAAGAGATGATTCCGAAATGGCGTCAACTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTa                                                       <  2:205114/149‑1 (MQ=255)

                                                                                                gTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGAGCCGCGTGACCGTCTGCGTCTGCGTGGTGTTCATGCTGTTACGCGTTACATTGTTa                                               >  1:205377/1‑149 (MQ=255)

                                                                                                 tACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTaa                                              >  1:185671/1‑149 (MQ=255)

                                                                                                  aCGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACAGGAGTGAAGCGCCGCACGACATTCTGCGTCTGCTTGGTGTTCATGCTGTTACTCGTTACATCGTTAAc                                             <  1:304400/149‑1 (MQ=255)

                                                                                                    gAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTACGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGa                                           >  1:4992/1‑149 (MQ=255)

                                                                                                       gagaTGATTCCGAAATCGCGTCAGCTCAACGTGTTCGAAGCTAAACGTGTAGAACGTGGTTACGTAAGTTCCGACGGTCCTGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGt                                        <  1:65978/149‑1 (MQ=255)

                                                                                                                 cGAAATGGCGTCAGCTCAACGTGTTCGAAGGTAAACGTGTAGAACAAGGTGGACTACGTACCGACGGAACAGAAGCGCCGCACGCCATTCTGCGTCTGAATGCTGTTCATCATGTTACTCGTCACCTCGTTAACTGACTACacgacggg                              >  2:104927/1‑147 (MQ=255)

                                                                                                                       ggggttggCTCAACGGGTTGGAAGGTAATCGTGTAGAACGTGGGGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAAAGAAGTACAGGACGTATACCGt                        <  2:285084/142‑1 (MQ=255)

                                                                                                                       ggCGTCAGGTCAACGTGTTCGAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGTACAGGACGTATACCGt                        <  2:252717/149‑1 (MQ=255)

                                                                                                                                           gAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGTACAGGACGTATACCGTCTGCAGGGCGTTAAGATTaa    <  1:118093/149‑1 (MQ=255)

                                                                                                                                           gAAGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGTACAGGACGTATACCGTCTGCAGGGCGTTAAGATTaa    <  2:65681/149‑1 (MQ=255)

                                                                                                                                             aGGTAAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGTACAGGACGTATACCGTCTGCAGGGCGTTAAGATTAACg  >  1:184469/1‑149 (MQ=255)

GGCAATCCTGGCTGAAATCAGCGGTATCGTTTCCTTCGGTAAAGAAACCAAAGGTAAACGTCGTCTGGTTATCACCCCGGTAGACGGTAGCGATCCGTACGAAGAGATGATTCCGAAATGGCGTCAGCTCAACGTGTTCGAAGGTGAACGTGTAGAACGTGGTGACGTAATTTCCGACGGTCCGGAAGCGCCGCACGACATTCTGCGTCTGCGTGGTGTTCATGCTGTTACTCGTTACATCGTTAACGAAGTACAGGACGTATACCGTCTGCAGGGCGTTAAGATTAACG  >  NC_000913_3_vch_pgi/4188808‑4189097

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 8 ≤` `ATCG/ATCG` `< 12 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 41 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A