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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

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%	170.9 / NA	53	755 (TAG→TAA)	ycaI	ComEC family inner membrane protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/27); total (26/27)

AATGGATTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAGAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTGGCGGGCG  >  NC_000913/966448‑966714

aaTGGATTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTaaaa                                                                                                                                  >  1:710376/1‑139 (MQ=255)

     aTTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGc                                                                                                                             >  2:170636/1‑139 (MQ=255)

         aTACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCt                                                                                                                         <  2:397778/139‑1 (MQ=255)

               cacaTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAata                                                                                                                                >  2:1466500/1‑126 (MQ=255)

               cacaTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAata                                                                                                                                <  1:1466500/126‑1 (MQ=255)

               cacaTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTca                                                                                                                   >  1:1167005/1‑139 (MQ=255)

                acaTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTcaa                                                                                                                  >  1:210115/1‑139 (MQ=255)

                  aTCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTcaaca                                                                                                                <  2:761871/139‑1 (MQ=255)

                   tCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCg                                                                                                                            <  2:581509/126‑1 (MQ=255)

                   tCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCg                                                                                                                            >  1:581509/1‑126 (MQ=255)

                    cAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACaaa                                                                                                              >  2:428906/1‑139 (MQ=255)

                    cAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACaaa                                                                                                              >  2:161689/1‑139 (MQ=255)

                    cAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACaaa                                                                                                              >  1:446003/1‑139 (MQ=255)

                      aGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATg                                                                                                            <  2:1108178/139‑1 (MQ=255)

                         tCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTg                                                                                                         >  1:951383/1‑139 (MQ=255)

                            aacaacGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGtt                                                                                                      >  1:411633/1‑139 (MQ=255)

                             acaacGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGttt                                                                                                     <  2:477424/139‑1 (MQ=255)

                                  ggTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGa                                                                                                >  2:1329777/1‑139 (MQ=255)

                                   gTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGaa                                                                                               >  2:343938/1‑139 (MQ=255)

                                   gTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGaa                                                                                               <  2:605411/139‑1 (MQ=255)

                                       aTTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCa                                                                                           <  2:463449/139‑1 (MQ=255)

                                        tttttCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCAt                                                                                          <  1:1312848/139‑1 (MQ=255)

                                              aGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGAc                                                                                    <  1:428906/139‑1 (MQ=255)

                                              aGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGAc                                                                                    >  2:540252/1‑139 (MQ=255)

                                               gcgcAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACa                                                                                   <  2:951383/139‑1 (MQ=255)

                                                            ggATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTAc                                                                      <  1:540252/139‑1 (MQ=255)

                                                                     gcCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGAc                                                             <  1:518052/139‑1 (MQ=255)

                                                                        tCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACAtt                                                          >  2:612351/1‑139 (MQ=255)

                                                                        tCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACAtt                                                          >  2:26458/1‑139 (MQ=255)

                                                                             gAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAACGGGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTccgc                                                      <  1:1216138/139‑1 (MQ=255)

                                                                                 aaaTTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACt                                                 <  2:1167005/139‑1 (MQ=255)

                                                                                       tACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAATTGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGcc                                           <  2:210115/139‑1 (MQ=255)

                                                                                       tACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGcc                                           <  2:474725/139‑1 (MQ=255)

                                                                                              ttGGTATCATCAGTGGTTTGCCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTctgc                                                      >  2:902597/1‑118 (MQ=255)

                                                                                              ttGATATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTctgc                                                      <  1:902597/121‑4 (MQ=255)

                                                                                                       tcaGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACg                                                                                      >  1:380859/1‑80 (MQ=255)

                                                                                                       tcaGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACg                                                                                      <  2:380859/80‑1 (MQ=255)

                                                                                                         aGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCAt                                                                                          >  1:371610/1‑74 (MQ=255)

                                                                                                         aGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCAt                                                                                          <  2:371610/74‑1 (MQ=255)

                                                                                                         aGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACaaa                                                                                 <  1:892132/83‑1 (MQ=255)

                                                                                                         aGTGATTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACaaa                                                                                 >  2:892132/1‑83 (MQ=255)

                                                                                                          gTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCaaa                        <  1:26458/139‑1 (MQ=255)

                                                                                                           tGGTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATACGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAg                       >  1:113333/1‑139 (MQ=255)

                                                                                                             gTTTGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCg                     <  1:612351/139‑1 (MQ=255)

                                                                                                                tGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGt                  >  2:445233/1‑139 (MQ=255)

                                                                                                                tGGCGTGCCAGTGGATAAC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGt                  >  2:576757/1‑139 (MQ=255)

                                                                                                                                aaC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTggcgggcg  <  1:161689/139‑1 (MQ=255)

                                                                                                                                aaC‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTggcgggcg  >  1:904049/1‑139 (MQ=255)

                                                                                                                                  c‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGAtct                                                                            >  1:1328373/1‑63 (MQ=255)

                                                                                                                                  c‑GGGTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGAtct                                                                            <  2:1328373/63‑1 (MQ=255)

                                                                                                                                      gTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCa                          >  1:305265/1‑110 (MQ=255)

                                                                                                                                      gTAAAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCa                          <  2:305265/110‑1 (MQ=255)

                                                                                                                                      gTAAAATATGCGCCTATTTCAACAAATGCTGGTTTTTTGAATGCATa                                                                                         <  1:1261131/47‑1 (MQ=39)

                                                                                                                                      gTAAAATATGCGCCTATTTCAACAAATGCTGGTTTTTTGAATGCATa                                                                                         >  2:1261131/1‑47 (MQ=38)

AATGGATTGATACTCCACATCAAGGTCAAACAACGGTCAATTTTTCAGCGCAAGGCTGGCGGATTAGCAGCCTCAGGGAGCAAATTTTACCTCGTTGGTATCATCAGTGGTTTGGCGTGCCAGTGGATAAC‑GGGTAGAATATGCGGCTATTTCAACAAATGCTGGTTTTTTGAATGCATAACGACAAAGATCTCTCTACGTGGCAGACATTCCGCCGACTGTGGCCAACCATTGCGCCTTTCAAAGCGGGTCTGATCGTGGCGGGCG  >  NC_000913/966448‑966714

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