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
A13 F1 I1 R1	778	68.7	3228504	93.4%	3015422	109.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,352,880	G→A	99 (TAG→TAA)	ghoS →	antitoxin of GhoTS toxin‑antitoxin pair, endonuclease for ghoT mRNA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,352,880	0	G	A	100.0%	185.8 / NA	57	99 (TAG→TAA)	ghoS	antitoxin of GhoTS toxin‑antitoxin pair, endonuclease for ghoT mRNA
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (22/35); total (22/35)

TTCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAGCCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCG  >  NC_000913/4352746‑4353005

ttCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCag                                                                                                                           <  1:242787/139‑1 (MQ=255)

 tCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagg                                                                                                                          <  1:1266677/139‑1 (MQ=255)

 tCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagg                                                                                                                          <  1:1284808/139‑1 (MQ=255)

  cGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  1:382921/139‑1 (MQ=255)

  cGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  1:1042336/139‑1 (MQ=255)

  cGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  2:621765/139‑1 (MQ=255)

  cGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  2:329930/139‑1 (MQ=255)

  cGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         >  2:1188828/1‑139 (MQ=255)

         aCGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCaggaagg                                                                                                                      >  2:97698/1‑135 (MQ=255)

         aCGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCaggaagg                                                                                                                      <  1:97698/135‑1 (MQ=255)

             cATCGTTAGCCGCAAGTGAAGTCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATaagaag                                                                                                              <  1:1595244/139‑1 (MQ=255)

               tCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAgaagaa                                                                                                            >  1:1611273/1‑139 (MQ=255)

                       cGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         >  2:927860/1‑118 (MQ=255)

                       cGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  1:927860/118‑1 (MQ=255)

                          aaGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         >  1:803530/1‑115 (MQ=255)

                          aaGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  2:803530/115‑1 (MQ=255)

                           aGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         >  2:1284104/1‑114 (MQ=255)

                           aGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  1:1284104/114‑1 (MQ=255)

                             tGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              <  2:839956/139‑1 (MQ=255)

                                aaTCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTa                                                                                           <  1:506480/139‑1 (MQ=255)

                                 aTCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagg                                                                                                                          >  2:1312485/1‑107 (MQ=255)

                                 aTCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagg                                                                                                                          <  1:1312485/107‑1 (MQ=255)

                                       gATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTa                                                                                    <  1:899428/139‑1 (MQ=255)

                                                            ttAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              <  2:913106/108‑1 (MQ=255)

                                                            ttAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              >  1:913106/1‑108 (MQ=255)

                                                            ttAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               <  1:636548/139‑1 (MQ=255)

                                                            ttAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               <  2:1611273/139‑1 (MQ=255)

                                                            ttAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               <  1:1388112/139‑1 (MQ=255)

                                                                  ttACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGgtg                                                         <  1:1188828/139‑1 (MQ=255)

                                                                     ccGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              >  1:1069254/1‑99 (MQ=255)

                                                                     ccGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              <  2:1069254/99‑1 (MQ=255)

                                                                          tatTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACata                                                 >  1:339061/1‑139 (MQ=255)

                                                                               aTTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCag                                                                                                                           >  1:791377/1‑60 (MQ=255)

                                                                               aTTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCag                                                                                                                           <  2:791377/60‑1 (MQ=255)

                                                                                    gACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         <  1:688604/57‑1 (MQ=255)

                                                                                    gACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCagga                                                                                                                         >  2:688604/1‑57 (MQ=255)

                                                                                          aaCATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               <  2:843836/109‑1 (MQ=255)

                                                                                          aaCATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               >  1:843836/1‑109 (MQ=255)

                                                                                               tATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               >  2:1150458/1‑104 (MQ=255)

                                                                                               tATGACAGTTGATGACTATTTCCGTCAATTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               <  1:1150458/104‑1 (MQ=255)

                                                                                                 tGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTAt                          <  2:1220150/139‑1 (MQ=255)

                                                                                                      gTTGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTcac                     <  1:841631/139‑1 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              <  2:324497/65‑1 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              >  2:377303/1‑65 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              <  2:241157/65‑1 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              <  1:377303/65‑1 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              >  1:241157/1‑65 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCa                                                                                              >  1:324497/1‑65 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTAt                                   <  2:1430981/124‑1 (MQ=255)

                                                                                                       ttGATGACTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTAt                                   >  1:1430981/1‑124 (MQ=255)

                                                                                                         gatgaCTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               >  1:1307697/1‑94 (MQ=255)

                                                                                                         gatgaCTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGa                                                               <  2:1307697/94‑1 (MQ=255)

                                                                                                         gatgaCTATTTCCGTCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATg                  >  1:1271826/1‑139 (MQ=255)

                                                                                                                       tCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACCTAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGAt                                                              <  1:1140852/81‑1 (MQ=255)

                                                                                                                       tCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGAt                                                              >  2:1140852/1‑81 (MQ=255)

                                                                                                                       tCAGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATAtt    <  2:79784/139‑1 (MQ=255)

                                                                                                                         aGTTTTACAAGTAACCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCg  >  1:926015/1‑139 (MQ=255)

TTCGCAATAACGACATCGTTAGCCGCAAGTGAAATCGAAGATTTAATCAGGCTCAAATGCTTAGACTTACCGGATATTGATTTTGACCTCAACATTATGACAGTTGATGACTATTTCCGTCAGTTTTACAAGTAGCCAGGAAGGATAAGAAGAACATAAAAAATGGCACTATTCTCTAAAATATTAATTTTTTATGTGATTGGTGTGAACATATCCTTTGTCATTATCTGGTTTATCTCACATGAGAAAACACATATTCG  >  NC_000913/4352746‑4353005

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A