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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	855,796	A→G	intergenic (‑52/‑167)	ldtB ← / → ybiT	L,D‑transpeptidase linking Lpp to murein/ABC‑F family putative regulatory ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	855,796	0	A	G	100.0%	125.3 / NA	36	intergenic (‑52/‑167)	ldtB/ybiT	L,D‑transpeptidase linking Lpp to murein/ABC‑F family putative regulatory ATPase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/20); total (16/20)

AGTTACCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTATTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATG  >  NC_000913/855667‑855928

aGTTACCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAgcg                                                                                                                             <  1:119004/139‑1 (MQ=255)

 gTTACCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAgcgc                                                                                                                            <  2:1033998/139‑1 (MQ=255)

            ggCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAg                                                                                                                               >  2:496992/1‑125 (MQ=255)

            ggCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAg                                                                                                                               <  1:496992/125‑1 (MQ=255)

             gCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCa                                                                                                                >  1:1071960/1‑139 (MQ=255)

                gTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTc                                                                                                             <  2:798740/139‑1 (MQ=255)

                         aaGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                    >  1:1090544/1‑139 (MQ=255)

                         aaGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                    <  2:396525/139‑1 (MQ=255)

                              gACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                  >  2:586751/1‑136 (MQ=255)

                              gACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                  <  1:586751/136‑1 (MQ=255)

                                caacaGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAAt                                                                                             <  1:914951/139‑1 (MQ=255)

                                   caGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAg                                                                                          <  2:1071960/139‑1 (MQ=255)

                                                         tGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACAttttt                                                                    >  1:1045717/1‑139 (MQ=255)

                                                             ttCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGcc                                                                <  2:1090544/139‑1 (MQ=255)

                                                                           aatgttcacagagaTTTTGTGGAGAGCAGGCCATTGGGTTATGCATATTAGAACGTTGGAAGCGCATTATAAAGGCATTGCAGATGACGGTGAAATGAGATGTGTACGAAATCGCTTTTTTTGCCTTTGGCTTAAatgt                                                  <  1:1097967/129‑1 (MQ=255)

                                                                            aTGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAgcg                                                                                                                             <  2:970031/63‑1 (MQ=255)

                                                                            aTGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAgcg                                                                                                                             >  1:970031/1‑63 (MQ=255)

                                                                              gTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                    <  2:1115096/86‑1 (MQ=255)

                                                                              gTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                    >  1:1115096/1‑86 (MQ=255)

                                                                                      agaTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                  >  1:517238/1‑80 (MQ=255)

                                                                                      agaTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGt                                                                                                  <  2:517238/80‑1 (MQ=255)

                                                                                       gaTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCg                                      <  2:381378/139‑1 (MQ=255)

                                                                                        aTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGtt                                                                                                                  >  1:651229/1‑62 (MQ=255)

                                                                                        aTTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGtt                                                                                                                  <  2:651229/62‑1 (MQ=255)

                                                                                                             tGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAgtg                                                   <  2:1160537/104‑1 (MQ=255)

                                                                                                             tGGGTTGAGAATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAgtg                                                   >  1:1160537/1‑104 (MQ=255)

                                                                                                                    agaATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAg                                                                                          <  1:697978/58‑1 (MQ=255)

                                                                                                                    agaATATTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAg                                                                                          >  2:697978/1‑58 (MQ=255)

                                                                                                                         atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCt                                                                                                        >  1:863173/1‑39 (MQ=255)

                                                                                                                         atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCt                                                                                                        <  2:863173/39‑1 (MQ=255)

                                                                                                                         atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                    >  2:695187/1‑43 (MQ=255)

                                                                                                                         atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTcaca                                                                                                    <  1:695187/43‑1 (MQ=255)

                                                                                                                         atTAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATaa    >  2:896782/1‑139 (MQ=255)

                                                                                                                           tAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCttt                    <  1:262355/121‑1 (MQ=255)

                                                                                                                           tAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCttt                    >  2:262355/1‑121 (MQ=255)

                                                                                                                           tAGAGTGTTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATg  >  2:828401/1‑139 (MQ=255)

AGTTACCGCAGAGGCGGTACTGCAAAAGCCGACAACAGCGAAGGCCGCTGCGAATAATGTTTTCAATTTCATATTCATGTTAAGCGAGATTTTGTGCCTGGCAGGCCATTGGGTTGAGAATATTAGAGTATTGGAAGCGCATTATAAGTTCATTCCAGCTCACAGTGAAATCAGATGTGTACGAAATCACATTTTTTGCCTTTGGCTTGAGTGTAGACCTTAAGCGAGGAGCAGGATCTTCTTTCAGACTTATGGCATAATG  >  NC_000913/855667‑855928

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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