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
A1 F8 I0 R1	311	50.1	4085234	95.9%	3917739	60.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	379,608	G→A	23.7%	I153I (ATC→ATT)	yaiO ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	379,608	0	G	A	23.7%	146.0 / 44.6	76	I153I (ATC→ATT)	yaiO	hypothetical protein
Reads supporting (aligned to +/- strand): ref base G (29/29); new base A (6/12); total (35/41)
Fisher's exact test for biased strand distribution p-value = 2.82e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.15e-01

GCACGGAAATCATATTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAATATTT  >  W3110S.gb/379538‑379676

gCACGGAAATCATATTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTtgtg                                                                      <  1:2384191/71‑1 (MQ=255)

  aCGGAAATCATATTTCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGAt                                                                    <  1:2866861/71‑1 (MQ=255)

       aaTCATATTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAAt                                                                    >  1:1652970/1‑66 (MQ=255)

         tCATATTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTg                                                                      <  1:802831/62‑1 (MQ=255)

          aatatTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCa                                                                  >  1:4073707/2‑65 (MQ=255)

           atatTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCAc                                                                 >  1:3825308/1‑65 (MQ=255)

           atatTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGc                                                            >  1:1398274/1‑70 (MQ=255)

              ttGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAg                                                         <  1:1296521/70‑1 (MQ=255)

                gCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGta                                                       >  1:547978/1‑70 (MQ=255)

                 cTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtata                                                     <  1:1967031/71‑1 (MQ=255)

                 cTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtata                                                     <  1:316816/71‑1 (MQ=255)

                 cTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGtata                                                     <  1:2220441/71‑1 (MQ=255)

                    taACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATaga                                                   <  1:2902611/70‑1 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTg                                                                      >  1:3763577/1‑49 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCAc                                                                 >  1:1076242/1‑54 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGt                                                 >  1:1594077/1‑70 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGt                                                 >  1:3756341/1‑70 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGt                                                 >  1:1170907/1‑70 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGt                                                 >  1:3816669/1‑70 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATAGAGTg                                                <  1:1839199/71‑1 (MQ=255)

                      aCTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATAGAGTg                                                <  1:1843883/71‑1 (MQ=255)

                       cTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATAGAGTGa                                               <  1:2150173/71‑1 (MQ=255)

                         accaccTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGa                                               >  1:2320524/1‑69 (MQ=255)

                         accaccTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGa                                               >  1:2514233/1‑69 (MQ=255)

                         accaccTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGa                                               >  1:1823328/1‑69 (MQ=255)

                         accaccTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGa                                               >  1:998606/1‑69 (MQ=255)

                             ccTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGta                                                       <  1:1237663/57‑1 (MQ=255)

                              cTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGtata                                                     <  1:1133597/58‑1 (MQ=255)

                               tGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtata                                                     >  1:1764889/1‑57 (MQ=255)

                               tGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtata                                                     >  1:640303/1‑57 (MQ=255)

                                gCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATc                                                                   >  1:925011/1‑42 (MQ=255)

                                gCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCa                                                                  >  1:1530909/1‑43 (MQ=255)

                                gCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCAc                                                                 >  1:481426/1‑44 (MQ=255)

                                gCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCAc                                                                 >  1:1769268/1‑44 (MQ=255)

                                gCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCAc                                                                 >  1:2124937/1‑44 (MQ=255)

                                gCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATAGAGTGATACgccgcc                                      >  1:14055/1‑71 (MQ=255)

                                 cATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATAcgccgc                                       <  1:1391290/69‑1 (MQ=255)

                                 cATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATAcgccgc                                       <  1:2682479/69‑1 (MQ=255)

                                  aTCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGt                                                 <  1:267976/58‑1 (MQ=255)

                                  aTCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCtt                                    <  1:2578814/71‑1 (MQ=255)

                                   tCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtata                                                     <  1:626121/53‑1 (MQ=255)

                                   tCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATc                                                                   <  1:942164/39‑1 (MQ=255)

                                    cGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtata                                                     <  1:294207/52‑1 (MQ=255)

                                     gCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGtat                                                      >  1:697463/1‑50 (MQ=255)

                                     gCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATaga                                                   >  1:2171306/1‑53 (MQ=255)

                                     gCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGcc                                 <  1:3494156/71‑1 (MQ=255)

                                     gCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGc                                  >  1:3729833/1‑70 (MQ=255)

                                     gCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCAc                                                                 >  1:444396/1‑39 (MQ=255)

                                     gCTGGAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATaga                                                   >  1:2383883/1‑53 (MQ=255)

                                        ggAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGa                                               <  1:632488/54‑1 (MQ=255)

                                         gAGTCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATAGACTGATACGCCGCCTTGCCAgg                              <  1:3302247/70‑1 (MQ=255)

                                            tCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAg                                                         <  1:3771688/40‑1 (MQ=255)

                                            tCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATag                                                    <  1:4036763/45‑1 (MQ=255)

                                            tCATAATGGGTATAGCGGTAGCTGGTAATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATc                          >  1:3364366/1‑71 (MQ=255)

                                              aTAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGc                                  >  1:1850511/1‑61 (MQ=255)

                                              aTAATGGGTATAGCGGTAGCTGGTGATCACCGGGACAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGa                        >  1:1104738/1‑71 (MQ=255)

                                                 aTGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATa                                             >  1:1444387/1‑47 (MQ=255)

                                                     gTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGa                  <  1:1238553/70‑1 (MQ=255)

                                                      tataGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGcc                                 <  1:755017/54‑1 (MQ=255)

                                                      tataGCGGTAGCTGGTAATCACCGGGCCAGTATaga                                                   <  1:2702218/36‑1 (MQ=255)

                                                        taGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCtt                                    <  1:2469188/49‑1 (MQ=255)

                                                        taGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCtt                                    <  1:2736620/49‑1 (MQ=255)

                                                        taGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGAcatc              <  1:1406560/71‑1 (MQ=255)

                                                        taGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGAcatc              <  1:1909661/71‑1 (MQ=255)

                                                        taGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGAcatc              <  1:1836841/71‑1 (MQ=255)

                                                          gCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGc                                  >  1:237879/1‑49 (MQ=255)

                                                          gCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGc                                  >  1:3943304/1‑49 (MQ=255)

                                                          gCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGAcatca             <  1:696351/70‑1 (MQ=255)

                                                          gCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGAcatca             <  1:3894864/70‑1 (MQ=255)

                                                          gCGGTAGCTGGTGATCACCGGGCAAGTATAGAGTGATACGCCGCCTTGc                                  >  1:3224171/1‑49 (MQ=255)

                                                                gCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTaa       <  1:1819536/70‑1 (MQ=255)

                                                                gCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTaa       <  1:3358744/70‑1 (MQ=255)

                                                                gCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAat      <  1:1868132/71‑1 (MQ=255)

                                                                gCTGGTAATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTaa       <  1:389768/70‑1 (MQ=255)

                                                                gCTGGTAATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTaa       <  1:3817457/70‑1 (MQ=255)

                                                                    gTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAATAttt  <  1:754465/71‑1 (MQ=255)

                                                                    gTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAATAttt  <  1:1390854/71‑1 (MQ=255)

                                                                    gTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAATAtt   >  1:2783723/1‑70 (MQ=255)

                                                                    gTGATCACCGGGCCAGTATAGAGTCATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAATAttt  <  1:197637/71‑1 (MQ=255)

GCACGGAAATCATATTGCTATAACTACCACCTGCATCGCTGGAGTCATAATGGGTATAGCGGTAGCTGGTGATCACCGGGCCAGTATAGAGTGATACGCCGCCTTGCCAGGCATCGACTTCGACATCATCGTAATATTT  >  W3110S.gb/379538‑379676

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