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 F21 I0 R1	2169	63.0	3952800	76.2%	3012033	62.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	455,045	C→T	25.0%	V14I (GTC→ATC)	ybgH ←	predicted transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	455,045	0	C	T	25.0%	141.3 / 45.8	80	V14I (GTC→ATC)	ybgH	predicted transporter
Reads supporting (aligned to +/- strand): ref base C (26/34); new base T (9/11); total (35/45)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01

GAGATAGAGAATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAACGTCAC  >  minE/454977‑455113

gagaTAGAGAATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACa                                                                     >  1:2183757/1‑70 (MQ=255)

 agaTAGAGAATGAGTAAGGCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGAtata                                                                   <  1:1031011/71‑1 (MQ=255)

   aTAGAGAATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGt                                                                 <  1:2289002/71‑1 (MQ=255)

    tAGAGAATGAGTAAGGCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTa                                                                >  1:1461850/1‑71 (MQ=255)

    tAGAGAATCAGCAGGACACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTa                                                                <  1:220749/71‑1 (MQ=255)

      gagaATGAGTAAGGCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTata                                                              <  1:2013045/71‑3 (MQ=255)

      gagaATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTaaa                                                              <  1:1366534/71‑1 (MQ=255)

      gagaATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTaaa                                                              <  1:3595261/71‑1 (MQ=255)

      gagaATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTaaa                                                              <  1:1765787/71‑1 (MQ=255)

       agaATGAGTAAGGCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGAtata                                                                   <  1:3048127/65‑1 (MQ=255)

        gaATGAGTAAGGCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTatatc                                                            >  1:665482/1‑70 (MQ=255)

        gaATGAGTAAGGCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTatatc                                                            <  1:3408650/71‑2 (MQ=255)

        gaATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAAt                                                             <  1:1390922/70‑1 (MQ=255)

             agcagGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAgcgcg                                                       <  1:954568/71‑1 (MQ=255)

                agGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCgg                                                    >  1:574366/1‑71 (MQ=255)

                 gggCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGcgcgcg                                                     >  1:1412661/1‑69 (MQ=255)

                 gggCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGcgcgcg                                                     >  1:3215920/1‑69 (MQ=255)

                 aggCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGc                                                   <  1:2253888/70‑1 (MQ=255)

                 aggCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGc                                                   <  1:742297/70‑1 (MQ=255)

                  ggCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCt                                                  <  1:1765940/71‑1 (MQ=255)

                  ggCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCt                                                  <  1:1058675/71‑1 (MQ=255)

                   gCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCtg                                                 <  1:523346/71‑1 (MQ=255)

                   gCACGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCt                                                  >  1:925881/1‑70 (MQ=255)

                    cACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCtgt                                                <  1:3820351/71‑1 (MQ=255)

                     aCGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGAc                                                                      >  1:2373244/1‑48 (MQ=255)

                     aCGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCtgt                                                >  1:2978068/1‑70 (MQ=255)

                      cGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAgc                                                          >  1:1591018/1‑59 (MQ=255)

                      cGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCtgt                                                >  1:2146594/1‑69 (MQ=255)

                      cGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGa                                              <  1:1320841/71‑1 (MQ=255)

                      cGCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGa                                              <  1:2396610/71‑1 (MQ=255)

                       gCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGAt                                             >  1:1978969/1‑71 (MQ=255)

                       gCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTa                                                                <  1:2916924/52‑1 (MQ=255)

                       gCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTa                                                                <  1:1194229/52‑1 (MQ=255)

                       gCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGag                                             >  1:1627916/1‑70 (MQ=255)

                       gCATGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGag                                             >  1:3258357/1‑70 (MQ=255)

                       gCATGCAGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGag                                             >  1:513700/1‑70 (MQ=255)

                         aTGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGc                                           >  1:954552/1‑71 (MQ=255)

                          tGCCGTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGag                                             <  1:3130043/68‑2 (MQ=255)

                            ccGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCgtg                                        >  1:3201955/1‑71 (MQ=255)

                            ccGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCgt                                         <  1:844890/70‑1 (MQ=255)

                            ccGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCgt                                         <  1:3627767/70‑1 (MQ=255)

                            ccGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCgt                                         <  1:970811/70‑1 (MQ=255)

                            ccGTAAAAGCTAAAATATTCCCAGATTTGAAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCgt                                         <  1:2950957/70‑1 (MQ=255)

                             cGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAAt                                                             <  1:428715/49‑1 (MQ=255)

                              gTAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGatat                                                                    <  1:1236708/41‑1 (MQ=255)

                               tAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACa                                                                     <  1:3026772/39‑1 (MQ=255)

                               tAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACa                                                                     <  1:3207931/39‑1 (MQ=255)

                               tAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGttt                                     <  1:1840787/71‑1 (MQ=255)

                               tAAAAACTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGagg                                            <  1:2582739/64‑3 (MQ=255)

                                 aaaaCTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGA‑GGGTGttttca                                  >  1:975180/1‑68 (MQ=255)

                                 aaaaCTGAAGTACTCCCAGATTTGGATCGCCACGATATAGTATATCGCGCGCGGCTGTGA‑GGGTGttttca                                  <  1:3945306/71‑4 (MQ=255)

                                  aaGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTAtt                                  <  1:1835985/71‑1 (MQ=255)

                                   aGCTAAAATATTCCCAGATTTGCAGCGCAACGACATa                                                                   >  1:1545148/1‑37 (MQ=255)

                                   aGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCtgt                                                <  1:3140237/56‑1 (MQ=255)

                                      tAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCtgt                                                <  1:3642785/53‑1 (MQ=255)

                                      tAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTa                                    <  1:2425680/65‑1 (MQ=255)

                                       aaaaTATTCCCAGATTTGCAGCGCAACGACATAGTa                                                                <  1:834973/36‑1 (MQ=255)

                                       aaaaTATTCCCAGATTTGCAGCGCAACGACATAGTa                                                                <  1:2826580/36‑1 (MQ=255)

                                       aaaaTATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCgg                                                    <  1:2976604/48‑1 (MQ=255)

                                       aaaaTATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCgg                                                    <  1:3761966/48‑1 (MQ=255)

                                        aaaTATTCCCAGATTTGCAGCGCAACGACATAGTaaa                                                              <  1:3947282/37‑1 (MQ=255)

                                        aaaTATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGa                                              >  1:3120921/1‑53 (MQ=255)

                                        aaaTATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGa                                              >  1:768312/1‑53 (MQ=255)

                                          atatTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTa                                    <  1:2360379/61‑1 (MQ=255)

                                          atatTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCAtaataa                          <  1:1649166/71‑1 (MQ=255)

                                           tatTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCtgt                                                >  1:1749513/1‑48 (MQ=255)

                                            atTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAAtt                        >  1:1736829/1‑71 (MQ=255)

                                             ttCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTc                       >  1:3255694/1‑71 (MQ=255)

                                              tCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTc                       >  1:2045534/1‑70 (MQ=255)

                                                ccAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCcac                    <  1:3367121/71‑1 (MQ=255)

                                                ccAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCca                     <  1:2367512/70‑1 (MQ=255)

                                                  aGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCcaca                   >  1:3313784/1‑70 (MQ=255)

                                                  aGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACaa                  <  1:775624/71‑1 (MQ=255)

                                                   gATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGATTATTCATAATAATTCCACAAt                 >  1:2068334/1‑71 (MQ=255)

                                                        gCAGCGCATCGACATAGTAAATAGCGCTCGGCTGTGATGCGTGTTTa                                    <  1:3225894/47‑1 (MQ=39)

                                                         cAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCcaca                   >  1:2811476/1‑63 (MQ=255)

                                                          aGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACgg           >  1:2086334/1‑70 (MQ=255)

                                                             gcAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAAc       >  1:1308397/1‑71 (MQ=255)

                                                               aaCGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAACGt     >  1:197753/1‑71 (MQ=255)

                                                               aaCGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAACGt     >  1:854809/1‑71 (MQ=255)

                                                               aaCGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAACGt     >  1:316874/1‑71 (MQ=255)

                                                                 cGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAAtt                        >  1:2443820/1‑50 (MQ=255)

                                                                 cGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTAATCATAATAATTCCACAATTGACGGCa         >  1:2142190/1‑65 (MQ=255)

                                                                  gACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAACGTCAc  >  1:149303/1‑71 (MQ=255)

GAGATAGAGAATCAGCAGGGCACGCATGCCGTAAAAGCTAAAATATTCCCAGATTTGCAGCGCAACGACATAGTAAATAGCGCGCGGCTGTGATGCGTGTTTATTCATAATAATTCCACAATTGACGGCAACGTCAC  >  minE/454977‑455113

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