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	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	966,584	G→A	755 (TAG→TAA)	ycaI →	ComEC family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	966,584	0	G	A	100.0%	99.5 / NA	32	755 (TAG→TAA)	ycaI	ComEC family inner membrane protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/14); total (18/14)

ATTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAGAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTGGCGGGCGTAGC  >  NC_000913/966453‑966718

aTTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGc                                                                                                                                 >  2:519953/1‑139 (MQ=255)

         ccACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTc                                                                                                                        >  2:99868/1‑139 (MQ=255)

           acaTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCt                                                                                                                             >  1:1138136/1‑132 (MQ=255)

           acaTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCt                                                                                                                             <  2:1138136/132‑1 (MQ=255)

            caTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTcaac                                                                                                                     <  1:99868/139‑1 (MQ=255)

               cAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACaaa                                                                                                                  >  2:214902/1‑139 (MQ=255)

               cAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACaaa                                                                                                                  >  1:1280587/1‑139 (MQ=255)

                  ggTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGc                                                                                                               >  1:1298174/1‑139 (MQ=255)

                  ggTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGc                                                                                                               >  2:747586/1‑139 (MQ=255)

                  ggTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGc                                                                                                               >  1:349504/1‑139 (MQ=255)

                                     tttCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATaa                                                                                            <  1:1303517/139‑1 (MQ=255)

                                     tttCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATaa                                                                                            <  1:214902/139‑1 (MQ=255)

                                            gcAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACaaa                                                                                     <  1:112103/139‑1 (MQ=255)

                                              aaGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGa                                                                                   <  1:436198/139‑1 (MQ=255)

                                                     gCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGaa                                                                                                   <  2:979827/116‑1 (MQ=255)

                                                     gCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGaa                                                                                                   >  1:979827/1‑116 (MQ=255)

                                                                       ggAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTccgc                                                          >  2:926577/1‑139 (MQ=255)

                                                                           cAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGAc                                                                                        <  2:668283/105‑1 (MQ=255)

                                                                           cAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGAc                                                                                        >  1:668283/1‑105 (MQ=255)

                                                                           cAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGAc                                                      <  2:349504/139‑1 (MQ=255)

                                                                                         ttGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCAtt                                        <  1:839904/139‑1 (MQ=255)

                                                                                            gTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTgcg                                     <  2:86895/139‑1 (MQ=255)

                                                                                            gTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTgcg                                     <  1:747586/139‑1 (MQ=255)

                                                                                              atcatcAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCAt                                                                                              >  1:935651/1‑80 (MQ=255)

                                                                                              atcatcAGTGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCAt                                                                                              <  2:935651/80‑1 (MQ=255)

                                                                                                      tGGTTTGGCGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAg                           >  2:1308440/1‑139 (MQ=255)

                                                                                                              cGTGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTg                   >  1:1154411/1‑139 (MQ=255)

                                                                                                                tGCCAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGTCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGAt                 >  1:819198/1‑139 (MQ=255)

                                                                                                                  ccAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTccgcc                                                         >  1:696183/1‑97 (MQ=255)

                                                                                                                  ccAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTccgcc                                                         <  2:696183/97‑1 (MQ=255)

                                                                                                                  ccAGTGGATAACGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCg               >  2:640793/1‑139 (MQ=255)

                                                                                                                               ggTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTGGCGGGCGTAGc  >  1:1324744/1‑139 (MQ=255)

ATTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGTAGAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTGGCGGGCGTAGC  >  NC_000913/966453‑966718

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A