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 F28 I1 R1	136	69.0	2332728	99.3%	2316398	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,734,543	(C)_8→9	coding (492/732 nt)	pgeF ←	polyphenol oxidase YfiH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,734,535	1	.	C	100.0%	154.2 / NA	43	E167G (GAG→GGG)	pgeF	polyphenol oxidase YfiH
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (26/17); total (26/17)

AAATTTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑T‑‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAGCCAGCATG  >  NC_000913/2734404‑2734665

aaaTTTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAATGCCTCGCGA‑‑ACC‑T‑‑cccccccc                                                                                                                            <  1:407479/140‑1 (MQ=255)

                     tCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGAcc                                                                                                        <  1:409652/140‑1 (MQ=255)

                           gACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGTGCGTGGACCAATTGc                                                                                                  <  1:285784/140‑1 (MQ=255)

                           gACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                                  <  1:436559/140‑1 (MQ=255)

                           gACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                                  <  1:420635/140‑1 (MQ=255)

                                                    atCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATAttt                                                                         >  1:1108559/1‑140 (MQ=255)

                                                        gCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ATC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCg                                                                     >  2:1011835/1‑140 (MQ=255)

                                                        gCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCg                                                                     >  2:619187/1‑140 (MQ=255)

                                                           aGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGAt                                                                  >  2:92994/1‑140 (MQ=255)

                                                                   aTCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCa                                                          >  1:186415/1‑140 (MQ=255)

                                                                    tCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TCCCCCCCCCCCCTTCGAACCCCCCGGGACCAATTGCCGGCCCTAACCCGGCGGAAAAATTTTCCGGATTATCAGCa                                                          >  2:877951/1‑140 (MQ=255)

                                                                      aCCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCaaaa                                                       >  2:1156833/1‑140 (MQ=255)

                                                                       ccATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAAc                                                      >  1:915080/1‑140 (MQ=255)

                                                                        cATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TCCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCaaaa                                                       <  2:1021272/139‑1 (MQ=255)

                                                                        cATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TCCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCaaaa                                                       >  1:1021272/1‑139 (MQ=255)

                                                                          tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg                                                   >  1:473897/1‑140 (MQ=255)

                                                                          tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg                                                   >  2:526774/1‑140 (MQ=255)

                                                                          tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg                                                   >  2:665641/1‑140 (MQ=255)

                                                                           gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TCCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAgg                                                   >  1:940143/1‑140 (MQ=255)

                                                                           gCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGa                                                  >  1:801497/1‑140 (MQ=255)

                                                                               aatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAAcc                                              >  2:611924/1‑140 (MQ=255)

                                                                               aatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAAcc                                              >  2:216172/1‑140 (MQ=255)

                                                                                 tgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGt                                            <  1:665641/140‑1 (MQ=255)

                                                                                  gaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGtc                                           <  2:801497/140‑1 (MQ=255)

                                                                                     aGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTctct                                        <  1:216172/140‑1 (MQ=255)

                                                                                     aGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTctct                                        >  2:609774/1‑140 (MQ=255)

                                                                                     aGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGGctct                                        >  1:580452/1‑140 (MQ=255)

                                                                                         gCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCa                                    >  2:1104780/1‑140 (MQ=255)

                                                                                               gCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGc                              >  1:885844/1‑140 (MQ=255)

                                                                                                  ttAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTg                           >  2:593333/1‑140 (MQ=255)

                                                                                                      cGTCTACTGCCATAAACGCCTCGCGA‑‑ACCGC‑‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                       <  1:143903/140‑1 (MQ=255)

                                                                                                      cGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                       >  1:514842/1‑140 (MQ=255)

                                                                                                      cGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                       <  2:915080/140‑1 (MQ=255)

                                                                                                      cGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                       <  2:186415/140‑1 (MQ=255)

                                                                                                      cGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                       <  1:1104780/140‑1 (MQ=255)

                                                                                                       ttttACTGCCAAAAACGCCCCGCGACCCCC‑C‑‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                       <  1:877951/137‑1 (MQ=255)

                                                                                                         cTACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAg                    >  1:1053742/1‑140 (MQ=255)

                                                                                                          tACTGCCATAAACGCCTCGCGA‑‑ACC‑TCCCCCCCCCCACTTCGACCGCGCGTGGACCAATTGCCGGCCCTAACAAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAg                    >  1:549763/1‑140 (MQ=255)

                                                                                                          tACTGCCATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGt                   <  2:1108559/140‑1 (MQ=255)

                                                                                                               ccATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACg              <  1:128449/140‑1 (MQ=255)

                                                                                                                cATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgc             <  1:636860/140‑1 (MQ=255)

                                                                                                                cATAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgc             <  1:619187/140‑1 (MQ=255)

                                                                                                                  tAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgcca           <  1:92994/140‑1 (MQ=255)

                                                                                                                  tAAACGCCTCGCGA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgcca           >  1:280960/1‑140 (MQ=255)

                                                                                                                    aaCGCCTCGCGA‑‑ACC‑TCCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgccag          <  2:940143/140‑1 (MQ=255)

                                                                                                                           cgcgA‑‑ACC‑TC‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAGCCAGCATg  >  2:829278/1‑140 (MQ=255)

AAATTTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGA‑‑ACC‑T‑‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAGCCAGCATG  >  NC_000913/2734404‑2734665

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A