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
A6 F1 I2 R1	67	27.9	1239648	95.3%	1181384	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,182,817	A→G	T525A (ACG→GCG)	rpoB →	RNA polymerase, beta subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,182,817	0	A	G	100.0%	140.4 / NA	37	T525A (ACG→GCG)	rpoB	RNA polymerase, beta subunit
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (20/17); total (20/17)

GGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTACGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAA  >  NC_000913/4182687‑4182939

gggCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACaaa                                                                                                                    <  1:609987/139‑1 (MQ=255)

      tCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAAcgtcgt                                                                                                              <  1:410985/139‑1 (MQ=255)

                  gATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTc                                                                                                  >  1:398911/1‑139 (MQ=255)

                    tGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGcaca                                                                                                                      >  1:416909/1‑117 (MQ=255)

                    tGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCgg                                                                                                >  2:353212/1‑139 (MQ=255)

                    tGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCgg                                                                                                >  1:399686/1‑139 (MQ=255)

                    tGCCACACGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGcaca                                                                                                                      <  2:416909/117‑1 (MQ=255)

                                      aCGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCg                                                                              >  2:455470/1‑139 (MQ=255)

                                      aCGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCg                                                                              >  2:444262/1‑139 (MQ=255)

                                      aCGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCg                                                                              >  1:44478/1‑139 (MQ=255)

                                       cGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGt                                                                             >  2:398012/1‑139 (MQ=255)

                                            aGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACg                                                                        >  1:101213/1‑139 (MQ=255)

                                             gCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGt                                                                       >  1:220240/1‑139 (MQ=255)

                                                           cagTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGt                                                         <  1:42867/139‑1 (MQ=255)

                                                           cagTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGt                                                         <  1:58374/139‑1 (MQ=255)

                                                              tGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCg                                                      <  1:444550/139‑1 (MQ=255)

                                                                     gTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTa                                               >  2:609092/1‑139 (MQ=255)

                                                                       tcttcGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTaca                                             >  2:524367/1‑139 (MQ=255)

                                                                           cGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCg                                         >  2:31448/1‑139 (MQ=255)

                                                                              ttCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACt                                      >  2:349106/1‑139 (MQ=255)

                                                                               tCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTc                                     >  1:384482/1‑139 (MQ=255)

                                                                                  agccagcTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGACCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGTCGTACACCCGACTCAcc                                  <  1:351867/139‑2 (MQ=255)

                                                                                       gcTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGt                             <  1:524367/139‑1 (MQ=255)

                                                                                       gcTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGt                             <  2:220240/139‑1 (MQ=255)

                                                                                       gcTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGt                             <  1:177865/139‑1 (MQ=255)

                                                                                           tctcAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGcaca                                                                                                                      <  2:295415/46‑1 (MQ=255)

                                                                                           tctcAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGcaca                                                                                                                      >  1:295415/1‑46 (MQ=255)

                                                                                                   tATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCa                 <  1:455470/139‑1 (MQ=255)

                                                                                                     tGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAAt               >  2:466854/1‑139 (MQ=255)

                                                                                                         ccAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGaa           <  2:44478/139‑1 (MQ=255)

                                                                                                           aGAACAACCCGTTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAAc         <  2:399686/139‑1 (MQ=255)

                                                                                                           aGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAAc         >  1:481111/1‑139 (MQ=255)

                                                                                                                  cccGCTGTCTGTGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGaa  <  2:398911/139‑1 (MQ=255)

                                                                                                                  cccGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACAcc                                           >  2:165953/1‑98 (MQ=255)

                                                                                                                  cccGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACAcc                                           <  1:165953/98‑1 (MQ=255)

                                                                                                                    cGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTc                                                                                     <  1:55127/54‑1 (MQ=255)

                                                                                                                    cGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTc                                                                                     >  2:55127/1‑54 (MQ=255)

GGGCGATCTGGATACCCTGATGCCACAGGATATGATCAACGCCAAGCCGATTTCCGCAGCAGTGAAAGAGTTCTTCGGTTCCAGCCAGCTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTACGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAA  >  NC_000913/4182687‑4182939

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 23 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A