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
A2 F8 I0 R2	296	77.6	4260404	88.1%	3753415	61.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	899,197	C→T	55.3%	P78L (CCT→CTT)	pspC →	transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	899,197	0	C	T	55.3%	29.9 / 129.4	94	P78L (CCT→CTT)	pspC	transcriptional activator
Reads supporting (aligned to +/- strand): ref base C (15/27); new base T (25/27); total (40/54)
Fisher's exact test for biased strand distribution p-value = 2.95e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 105 total aligned reads displayed.

GTTGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCGAGATG  >  minE/899127‑899267

gTTGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTAcc                                                                        >  1:3342645/1‑71 (MQ=255)

gTTGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTAcc                                                                        >  1:3333970/1‑71 (MQ=255)

 ttGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGGCGGACAACATGGCCTTTGGTGAGCAGCTACCt                                                                       <  1:3478692/71‑1 (MQ=255)

 ttGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCt                                                                       <  1:2602311/71‑1 (MQ=255)

 ttGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCt                                                                       <  1:2263269/71‑1 (MQ=255)

  tGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCt                                                                       <  1:2445878/70‑1 (MQ=255)

    cTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTc                                                                     >  1:1702567/1‑70 (MQ=255)

      tACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCcag                                                                  >  1:1412872/1‑71 (MQ=255)

      tACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCcag                                                                  >  1:2217221/1‑71 (MQ=255)

      tACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCcag                                                                  >  1:4187697/1‑71 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCcag                                                                  >  1:1033425/1‑70 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:4232255/69‑1 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:328719/69‑1 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:824555/69‑1 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:2495163/69‑1 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:3421992/69‑1 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:2644592/69‑1 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCcag                                                                  >  1:2162242/1‑70 (MQ=255)

       aCATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCcag                                                                  >  1:901305/1‑70 (MQ=255)

          tcatTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCagcagc                                                              <  1:3077970/71‑1 (MQ=255)

          tcatTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCagcagc                                                              <  1:4055426/71‑1 (MQ=255)

           catTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCagcagc                                                              >  1:245422/1‑70 (MQ=255)

            atTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCg                                                             >  1:2233875/1‑70 (MQ=255)

            atTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGCTGAGCAGCTACTTTCCAGCAGCg                                                             >  1:3942846/1‑70 (MQ=255)

             ttttGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCca                                                                   <  1:2439935/63‑1 (MQ=255)

               ttGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAAt                                                          <  1:1192081/70‑1 (MQ=255)

               ttGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAAt                                                          <  1:1686565/70‑1 (MQ=255)

               ttGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAAt                                                          <  1:4241671/70‑1 (MQ=255)

               ttGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAAt                                                          <  1:88429/70‑1 (MQ=255)

                    aTTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTg                                                     >  1:897061/1‑70 (MQ=255)

                    aTTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTg                                                     >  1:3954371/1‑70 (MQ=255)

                    aTTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTg                                                     >  1:2528534/1‑70 (MQ=255)

                       tGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGAt                                                  >  1:2847288/1‑70 (MQ=255)

                       tGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGAt                                                  >  1:1348937/1‑70 (MQ=255)

                       tGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCCAATTGCTGGAt                                                  >  1:2265623/1‑70 (MQ=255)

                        gcgcTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATg                                                 >  1:202993/1‑70 (MQ=255)

                        gcgcTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATg                                                 <  1:2513355/70‑1 (MQ=255)

                        gcgcTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATg                                                 <  1:1810168/70‑1 (MQ=255)

                        gcgcTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATg                                                 <  1:3119854/70‑1 (MQ=255)

                        gcgcTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATg                                                 <  1:405089/70‑1 (MQ=255)

                         cgcTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGc                                                       <  1:2273717/63‑1 (MQ=255)

                           cTTGATCCAATGCGGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATTAAGt                                             <  1:3631141/71‑1 (MQ=255)

                           cTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGt                                             <  1:2432373/71‑1 (MQ=255)

                           cTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGt                                             <  1:3337697/71‑1 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCt                                                      >  1:2680951/1‑61 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGt                                             <  1:4130563/70‑1 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGt                                             <  1:2598537/70‑1 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGt                                             >  1:4033880/1‑70 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTc                                            >  1:2771549/1‑71 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTc                                            >  1:1810073/1‑71 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTc                                            >  1:2028401/1‑71 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCg                                                             <  1:76143/54‑1 (MQ=255)

                            ttGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCg                                                             <  1:4225521/54‑1 (MQ=255)

                             tGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTc                                            >  1:2335651/1‑70 (MQ=255)

                                tCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGAcc                                        >  1:1467390/1‑71 (MQ=255)

                                tCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGAcc                                        >  1:2974843/1‑71 (MQ=255)

                                    aTGCCGGACAACATGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCg                                                             <  1:1558162/46‑1 (MQ=255)

                                       ccGGACAACATGGCCTTTGGTGAGCAGCTACTTTCcag                                                                  >  1:270130/1‑38 (MQ=255)

                                       ccGGACAACATGGCCTTTGGTGAGCAGCTACTTTCcag                                                                  >  1:3080110/1‑38 (MQ=255)

                                       ccGGACAACATGGCCTTTGGTGAGCAGCTACTTTCcag                                                                  >  1:3983000/1‑38 (MQ=255)

                                       ccGGACAACATGGCCTTTGGTGAGCAGCTACTTTCcag                                                                  >  1:3769489/1‑38 (MQ=255)

                                             aacaTGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTggcgg                            >  1:2943905/1‑70 (MQ=255)

                                             aacaTGGCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTggcgg                            >  1:1664506/1‑70 (MQ=255)

                                             aacaTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGaa                                               <  1:3687954/51‑1 (MQ=255)

                                             aacaTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGaa                                               <  1:1672144/51‑1 (MQ=255)

                                             aacaTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGaa                                               <  1:2612859/51‑1 (MQ=255)

                                               caTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGc                                                       <  1:1551580/41‑1 (MQ=255)

                                               caTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGc                                                       <  1:2944873/41‑1 (MQ=255)

                                               caTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGc                                                       <  1:526115/41‑1 (MQ=255)

                                               caTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGc                                                       <  1:1737706/41‑1 (MQ=255)

                                                aTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAg                        >  1:13066/1‑71 (MQ=255)

                                                aTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAg                        >  1:3261487/1‑71 (MQ=255)

                                                aTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAg                        >  1:351125/1‑71 (MQ=255)

                                                aTGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATAGCTGGATCAAg                                              >  1:167844/1‑49 (MQ=255)

                                                 tGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTggcggc                           <  1:1429360/67‑1 (MQ=255)

                                                 tGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTggcggc                           <  1:2388618/67‑1 (MQ=255)

                                                   gCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGa                     <  1:4205875/71‑1 (MQ=255)

                                                   gCCTTTGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGa                     <  1:4097053/71‑1 (MQ=255)

                                                   gCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTg                      >  1:3075387/1‑70 (MQ=255)

                                                        tGGTGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAAcgc                >  1:3523144/1‑71 (MQ=255)

                                                           tGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGtt             <  1:809991/71‑1 (MQ=255)

                                                           tGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGtt             <  1:1988797/71‑1 (MQ=255)

                                                           tGAGCAGCTACTTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGtt             <  1:2417981/71‑1 (MQ=255)

                                                           tGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGtt             <  1:1468710/71‑1 (MQ=255)

                                                           tGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGtt             <  1:2736131/71‑1 (MQ=255)

                                                           tGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGtt             <  1:3612789/71‑1 (MQ=255)

                                                                  cTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGa                                    <  1:3678056/41‑1 (MQ=255)

                                                                  cTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGa                                    <  1:814080/41‑1 (MQ=255)

                                                                    aCCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTg                                     <  1:1692580/38‑1 (MQ=255)

                                                                    aCCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAAc                                  >  1:543272/1‑41 (MQ=255)

                                                                    aCCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAAc                                  >  1:3442936/1‑41 (MQ=255)

                                                                     ccTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCgag     <  1:4040306/69‑1 (MQ=255)

                                                                     ccTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCgag     <  1:1501113/69‑1 (MQ=255)

                                                                     ccTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCgag     <  1:2143147/69‑1 (MQ=255)

                                                                     ccTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCgag     <  1:3421/69‑1 (MQ=255)

                                                                     ccTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCgag     <  1:144537/69‑1 (MQ=255)

                                                                      cTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGCACTGCCGGCAAGTGAAAcg                 >  1:371680/1‑56 (MQ=255)

                                                                      cTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCGAGATg  >  1:3304362/1‑71 (MQ=255)

                                                                      cTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGAGAAACGCGTTTACGCGAGATg  >  1:1088496/1‑71 (MQ=255)

                                                                      cTTCCAGCAGCGAATTGCTGGATGAACTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCGAGATg  >  1:2134683/1‑71 (MQ=255)

GTTGCTTACATCATTTTGTCATTTGCGCTTGATCCAATGCCGGACAACATGGCCTTTGGTGAGCAGCTACCTTCCAGCAGCGAATTGCTGGATGAAGTCGACCGTGAACTGGCGGCAAGTGAAACGCGTTTACGCGAGATG  >  minE/899127‑899267

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