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
A15 F60 I1 R1	16	51.6	1759406	98.6%	1734774	138.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,530,076	(A)_7→6	coding (155/483 nt)	ydcD →	uncharacterized protein YdcD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,530,070	0	A	.	100.0%	174.4 / NA	42	coding (149/483 nt)	ydcD	uncharacterized protein YdcD
Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (19/23); total (19/23)

TTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGAGTGGTTGATATAAATCTTAATTTTTTCAATGAT  >  NC_000913/1529932‑1530203

ttattaGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGaa                                                                                                                                      <  2:276981/140‑1 (MQ=255)

             aCTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATAttattta                                                                                                                        >  1:657169/1‑140 (MQ=255)

                 gTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATaaa                                                                                                                    >  1:81364/1‑140 (MQ=255)

                 gTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATaaa                                                                                                                    >  1:78992/1‑140 (MQ=255)

                 gTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATaaa                                                                                                                    >  1:565542/1‑140 (MQ=255)

                                            tttGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTaga                                                                                         <  2:452767/140‑1 (MQ=255)

                                                  gttTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAAt                                                                                   >  2:478333/1‑140 (MQ=255)

                                                  gttTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAAt                                                                                   >  2:165097/1‑140 (MQ=255)

                                                  gttTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAAt                                                                                   >  1:691573/1‑140 (MQ=255)

                                                  gttTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAAt                                                                                   >  1:641226/1‑140 (MQ=255)

                                                     tACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGTGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGt                                                                                >  1:309752/1‑140 (MQ=255)

                                                       ccTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCa                                                                              <  2:691573/140‑1 (MQ=255)

                                                           gggTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATtagta                                                                                           <  2:513338/123‑1 (MQ=255)

                                                           gggTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATtagta                                                                                           >  1:513338/1‑123 (MQ=255)

                                                           gggTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCAtttt                                                                          >  1:498318/1‑140 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTaga                                                                                         <  2:541278/123‑1 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTaga                                                                                         >  1:541278/1‑123 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                                                        <  1:44768/140‑1 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                                                        >  2:782526/1‑140 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                                                        <  1:403145/140‑1 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                                                        <  2:498318/140‑1 (MQ=255)

                                                             gTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTtat                                                                        <  1:209988/140‑1 (MQ=255)

                                                                  aTAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGta                                                                   >  2:117949/1‑140 (MQ=255)

                                                                  aTAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGta                                                                   >  2:361081/1‑140 (MQ=255)

                                                                     aCAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATaa                                                                <  1:656642/140‑1 (MQ=255)

                                                                          tCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGtt                                                           <  1:478333/140‑1 (MQ=255)

                                                                          tCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGtt                                                           <  1:361081/140‑1 (MQ=255)

                                                                          tCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGtt                                                           <  1:263521/140‑1 (MQ=255)

                                                                                   gACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTAc                                                  <  2:657169/140‑1 (MQ=255)

                                                                                    aCATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACa                                                 <  1:117949/140‑1 (MQ=255)

                                                                                       tCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGa                                              >  2:471591/1‑140 (MQ=255)

                                                                                         gTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACg                                            <  2:565542/140‑1 (MQ=255)

                                                                                           aTTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCa                                          <  1:165097/140‑1 (MQ=255)

                                                                                              ttATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACtg                                       <  1:152480/140‑1 (MQ=255)

                                                                                                  ggACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGa                                   <  2:641226/140‑1 (MQ=255)

                                                                                                  ggACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGa                                   <  2:78992/140‑1 (MQ=255)

                                                                                                  ggACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGa                                   <  2:81364/140‑1 (MQ=255)

                                                                                                  ggACATAAAACACCAAAGAGCGTTGAGATATAACTATCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTGGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGa                                   <  2:226082/140‑1 (MQ=255)

                                                                                                   gACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGAg                                  <  2:508795/140‑1 (MQ=255)

                                                                                                    aCATAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGAGt                                 >  1:216727/1‑140 (MQ=255)

                                                                                                      aTAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAgg                                               <  2:357468/124‑1 (MQ=255)

                                                                                                      aTAAAACACCAAAGAGCGTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAgg                                               >  1:357468/1‑124 (MQ=255)

                                                                                                                       gTTGAGATATATCTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGAGTGGTTGATATAAATCTTAAt              >  1:722817/1‑140 (MQ=255)

                                                                                                                                   cTTTCTG‑AAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGAGTGGTTGATATAAATCTTAATTTTTTCAATGat  <  1:811392/140‑1 (MQ=255)

TTATTAGAGGCAAACTTGTCATTTTTTTAATTACCCTTTGTTTATTTGTTGTTTACCTTGGGTTTGATAACAATTCAAATTCTGACATCGTATTTTATGGACATAAAACACCAAAGAGCGTTGAGATATATCTTTCTGAAAAAAATATTATTTATAAAATAATTAATGACCAAAAAATTAGTAGAGGGAATGGTCATTTTATAAGTATAATGGTTAATAATTACAGGACGCACTGTGGAGTGGTTGATATAAATCTTAATTTTTTCAATGAT  >  NC_000913/1529932‑1530203

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A