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
A6 F17 I0 R2	159	90.8	4763082	92.7%	4415377	60.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	2,429,321	T→C	5.5%	M88V (ATG→GTG)	wzzE ←	Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,429,321	0	T	C	5.5%	332.2 / 8.1	109	M88V (ATG→GTG)	wzzE	Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein
Reads supporting (aligned to +/- strand): ref base T (53/50); new base C (3/3); total (56/53)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-01

Only 100 of 110 total aligned reads displayed.

CACGAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCATATTCA  >  minE/2429251‑2429386

cACGAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCAt                                                                   <  1:3575069/71‑1 (MQ=255)

 aCGAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATg                                                                  >  1:1051893/1‑71 (MQ=255)

  cGAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGt                                                                 <  1:1701367/71‑1 (MQ=255)

  cGAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCACGt                                                                 <  1:3160864/71‑1 (MQ=255)

   gAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGtt                                                                >  1:2208347/1‑71 (MQ=255)

   gAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGtt                                                                >  1:3234808/1‑71 (MQ=255)

     ggCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTg                                                              <  1:2796370/71‑1 (MQ=255)

     ggCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTg                                                              <  1:624393/71‑1 (MQ=255)

      gCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTg                                                              <  1:618784/70‑1 (MQ=255)

       ccAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            >  1:2168891/1‑71 (MQ=255)

       ccAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            >  1:2272773/1‑71 (MQ=255)

       ccAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            >  1:137579/1‑71 (MQ=255)

       ccAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            >  1:87860/1‑71 (MQ=255)

           ttGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            <  1:1150676/67‑1 (MQ=255)

           ttGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            <  1:322431/67‑1 (MQ=255)

           ttGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            <  1:857061/67‑1 (MQ=255)

           ttGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            <  1:463880/67‑1 (MQ=255)

           ttGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGa                                                        >  1:742018/1‑71 (MQ=255)

           ttGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGa                                                        <  1:2829217/71‑1 (MQ=255)

            tGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGa                                                        >  1:4060234/1‑70 (MQ=255)

               aTAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    >  1:58048/1‑71 (MQ=255)

               aTAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    <  1:4276156/71‑1 (MQ=255)

               aTAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    <  1:2153282/71‑1 (MQ=255)

               aTAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    >  1:4076249/1‑71 (MQ=255)

               aTAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    <  1:3243870/71‑1 (MQ=255)

                tAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCATAAGCCATGTTTg                                                              <  1:892349/60‑1 (MQ=255)

                tAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTg                                                              <  1:337718/60‑1 (MQ=255)

                tAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    <  1:4270610/70‑1 (MQ=255)

                  aCAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACAt                                                     >  1:3260985/1‑67 (MQ=255)

                  aCAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCa                                                  <  1:1997141/70‑1 (MQ=255)

                  aCAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAg                                                 >  1:553805/1‑71 (MQ=255)

                  aCAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAg                                                 >  1:298452/1‑71 (MQ=255)

                  aCAAACTCTTTATAGGCTTCGTCCATGACCGATGCTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCa                                                  >  1:3532505/1‑70 (MQ=255)

                     aaCTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGtt                                              <  1:764132/71‑1 (MQ=255)

                      aCTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGa                                                        >  1:4695773/1‑60 (MQ=255)

                       ctctTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTAc                                            >  1:3132181/1‑71 (MQ=255)

                        tctTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACg                                           >  1:3723902/1‑71 (MQ=255)

                          tttATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    <  1:4669807/60‑1 (MQ=255)

                           ttATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATc                                                    <  1:2443913/59‑1 (MQ=255)

                            tataGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACg                                                          >  1:3556962/1‑52 (MQ=255)

                            tataGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCaa                                        >  1:3243393/1‑70 (MQ=255)

                             ataGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCaaa                                       <  1:4078904/70‑1 (MQ=255)

                                 gCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtg                                  <  1:1209042/71‑1 (MQ=255)

                                  cTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGa                                                             <  1:2871602/43‑1 (MQ=255)

                                  cTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGa                                                             <  1:4003409/43‑1 (MQ=255)

                                  cTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGa                                                             <  1:494069/43‑1 (MQ=255)

                                  cTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGa                                                             <  1:730278/43‑1 (MQ=255)

                                  cTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGa                                                             <  1:2035764/43‑1 (MQ=255)

                                     cGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgc                              >  1:1668314/1‑71 (MQ=255)

                                     cGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctg                               <  1:1889847/70‑1 (MQ=255)

                                      gTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgct                             >  1:4586620/1‑71 (MQ=255)

                                      gTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgct                             >  1:3580322/1‑71 (MQ=255)

                                      gTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgct                             >  1:332200/1‑71 (MQ=255)

                                      gTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgct                             <  1:1412038/71‑1 (MQ=255)

                                      gTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgct                             >  1:1615695/1‑71 (MQ=255)

                                      gTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgct                             >  1:2024674/1‑71 (MQ=255)

                                        ccATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgctg                            <  1:1358037/70‑1 (MQ=255)

                                         cATGACCGATGGTTGGTCGGCATAAGCCATGTTTGAACGGACAtac                                                   >  1:4710212/1‑44 (MQ=255)

                                         cATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            >  1:2957861/1‑37 (MQ=255)

                                         cATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGaa                                                            >  1:44914/1‑37 (MQ=255)

                                         cATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgctgc                           <  1:913158/70‑1 (MQ=255)

                                         cATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgctgc                           <  1:872751/70‑1 (MQ=255)

                                         cATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgctgc                           >  1:2910881/1‑70 (MQ=255)

                                            gACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACa                                                      <  1:1557829/40‑1 (MQ=255)

                                            gACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAAtt                                   <  1:2952656/59‑1 (MQ=255)

                                            gACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAg                        >  1:4584195/1‑70 (MQ=255)

                                             aCCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACAt                                                     >  1:3469636/1‑40 (MQ=255)

                                             aCCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACAt                                                     >  1:3693797/1‑40 (MQ=255)

                                             aCCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAg                        >  1:4034269/1‑69 (MQ=255)

                                                 aTGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAatat                  <  1:188018/71‑1 (MQ=255)

                                                   ggttggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgc                                 >  1:926442/1‑54 (MQ=255)

                                                   ggttggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgc                                 >  1:715510/1‑54 (MQ=255)

                                                   ggttggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgc                                 >  1:2153837/1‑54 (MQ=255)

                                                   ggttggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAata                   >  1:3841217/1‑68 (MQ=255)

                                                   ggttggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAata                   >  1:301040/1‑68 (MQ=255)

                                                    gttggtCGGCAGAAGCCACGTTTGAACGGACATCCa                                                  <  1:3573007/36‑1 (MQ=255)

                                                      tggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgc                                 >  1:1279577/1‑51 (MQ=255)

                                                      tggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgc                                 >  1:4548845/1‑51 (MQ=255)

                                                      tggtCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgc                                 >  1:2417074/1‑51 (MQ=255)

                                                         tCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTaa                     <  1:1218848/60‑1 (MQ=255)

                                                         tCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAg          <  1:1755051/71‑1 (MQ=255)

                                                         tCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAg          >  1:4262127/1‑71 (MQ=255)

                                                         tCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAg          <  1:1763301/71‑1 (MQ=255)

                                                         tCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAg          >  1:1860027/1‑71 (MQ=255)

                                                           ggCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtg                                  <  1:1203449/45‑1 (MQ=255)

                                                           ggCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAata                   >  1:4286269/1‑60 (MQ=255)

                                                           ggCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGc         <  1:2996172/70‑1 (MQ=255)

                                                           ggCAGAAGCCACGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCa        >  1:2870746/1‑71 (MQ=255)

                                                            gCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATtgctgctgc                           <  1:4166751/51‑1 (MQ=255)

                                                            gCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGc         <  1:4449506/69‑1 (MQ=255)

                                                             cAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCata      <  1:161681/71‑1 (MQ=255)

                                                             cAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCata      <  1:4122928/71‑1 (MQ=255)

                                                               gAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCATAtt    >  1:3565958/1‑71 (MQ=255)

                                                               gAAGCCACGTTTGAACGGACATCCAGGTTACGCaaaa                                      <  1:349898/37‑1 (MQ=255)

                                                                aaGCCATGTTTGAACGGACATCCAGGTTACGCaaaa                                      <  1:2567078/36‑1 (MQ=255)

                                                                 aGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCATATTCa  >  1:2086019/1‑71 (MQ=255)

                                                                 aGCCACGTTTGAACGGACATCCAGGTTACGCAAAAAt                                    >  1:2155898/1‑37 (MQ=255)

                                                                   ccATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGa                         >  1:789854/1‑46 (MQ=255)

                                                                   ccATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGa                         >  1:1311749/1‑46 (MQ=255)

                                                                   ccATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGa                         >  1:4290149/1‑46 (MQ=255)

CACGAGGCCAGTTGCATAACAAACTCTTTATAGGCTTCGTCCATGACCGATGGTTGGTCGGCAGAAGCCATGTTTGAACGGACATCCAGGTTACGCAAAAATTGCTGCTGCGAGTAATATCCCCCCAGCATATTCA  >  minE/2429251‑2429386

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A