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
A9 F1 I2 R1	78	48.0	2243616	94.8%	2126947	114.4

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)	yfiH ←	UPF0124 family protein

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%	74.6 / NA	21	E167G (GAG→GGG)	yfiH	UPF0124 family protein
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (12/9); total (12/9)

TTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCT‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAGCCA  >  NC_000913/2734408‑2734660

ttGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCT‑cccccc                                                                                                                         >  1:1109926/1‑134 (MQ=255)

ttGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCT‑cccccc                                                                                                                         <  2:1109926/134‑1 (MQ=255)

                                 ggCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTaa                                                                                    <  1:306682/139‑1 (MQ=255)

                                                               aTCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCT‑cccccc                                                                                                                         <  1:1063315/71‑1 (MQ=255)

                                                               aTCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCT‑cccccc                                                                                                                         >  2:1063315/1‑71 (MQ=255)

                                                                      tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                             >  2:69756/1‑93 (MQ=255)

                                                                      tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                             <  1:69756/93‑1 (MQ=255)

                                                                      tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACa                                                >  1:1074898/1‑138 (MQ=255)

                                                                      tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACa                                                <  2:1074898/138‑1 (MQ=255)

                                                                      tGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAg                                               >  1:854488/1‑139 (MQ=255)

                                                                         tgaatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGcc                                                                                        >  1:37468/1‑95 (MQ=255)

                                                                         tgaatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGcc                                                                                        <  2:37468/95‑1 (MQ=255)

                                                                           aatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                             <  2:82130/88‑1 (MQ=255)

                                                                           aatgaaAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                             >  1:82130/1‑88 (MQ=255)

                                                                                  gCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAAAAGGAAACCGTctct                                   >  1:79109/1‑139 (MQ=255)

                                                                                     gCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGaa                                                                                                               <  1:1049005/60‑1 (MQ=255)

                                                                                     gCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGaa                                                                                                               >  2:1049005/1‑60 (MQ=255)

                                                                                      cACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCa                               >  2:756334/1‑139 (MQ=255)

                                                                                                aGCGTCTACTGCCATAAACGCCTCGCGAACCT‑cccccccc                                                                                                                       >  1:523375/1‑40 (MQ=255)

                                                                                                aGCGTCTACTGCAATAAACGCCTCGCGAACCT‑cccccccc                                                                                                                       <  2:523375/40‑1 (MQ=255)

                                                                                                   gTCTACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGca                  <  1:1012795/139‑1 (MQ=255)

                                                                                                      tACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGaa                                                                                                               <  1:51323/43‑1 (MQ=255)

                                                                                                      tACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGaa                                                                                                               >  2:51323/1‑43 (MQ=255)

                                                                                                      tACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                             <  1:941506/61‑1 (MQ=255)

                                                                                                      tACTGCCATAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGc                                                                                             >  2:941506/1‑61 (MQ=255)

                                                                                                              tAAACGCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACgcc       >  1:203431/1‑139 (MQ=255)

                                                                                                                   gCCTCGCGAACCTCCCCCCCCCACTTCGAACGCGCGCGGACCAATTGCAGGCCCTAACCAGGCGAGAATATTTTCCGGATCATCAGCAAAACAGGAAACCGACGCTTCCGGCCAGCCTGCGCACAGTCAACgccatcca  >  1:724485/1‑139 (MQ=255)

TTGCTCAACACCCACGTTCGCCAGACGCTGCCGGGCAAGCTGATAAATATCCGCCAGATACTTATCACCATGCTGAATGAAAGCTGCACTTGCTTTAGCGTCTACTGCCATAAACGCCTCGCGAACCT‑CCCCCCCCACTTCGAACGCGCGTGGACCAATTGCCGGCCCTAACCAGGCGAGAATATTTTCCGGATTATCAGCAAAACAGGAAACCGTCTCTTCCAGCACGCCTGCGCACAGTCCACGCCAGCCA  >  NC_000913/2734408‑2734660

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A