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 F1 I0 R1	2892	75.3	5698161	66.1%	3766484	59.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,933,126	G→A	40.2%	R439R (CGC→CGT)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,126	0	G	A	40.2%	123.0 / 189.6	179	R439R (CGC→CGT)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base G (47/60); new base A (27/45); total (74/105)
Fisher's exact test for biased strand distribution p-value = 4.40e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.76e-01

Only 100 of 184 total aligned reads displayed.

ACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAG  >  minE/1933058‑1933195

aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                                      <  1:4591973/70‑1 (MQ=255)

  gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACg                                                                     <  1:251110/69‑1 (MQ=255)

  gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                                   <  1:1957255/71‑1 (MQ=255)

  gTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                                   <  1:2052306/71‑1 (MQ=255)

   tAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGttc                                                                  <  1:145909/71‑2 (MQ=255)

    aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                                    <  1:2769100/68‑1 (MQ=255)

     aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                                >  1:5333516/1‑71 (MQ=255)

     aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                                 <  1:1217528/70‑1 (MQ=255)

     aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                                 <  1:2946673/70‑1 (MQ=255)

     aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGCCAACCTGATCCAGGAAGCGTTgcg                                                                >  1:3048664/1‑71 (MQ=255)

       cTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                              >  1:5031790/1‑71 (MQ=255)

        ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                                               >  1:5430545/1‑69 (MQ=255)

        ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                             >  1:2063233/1‑71 (MQ=255)

          cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                                               <  1:3314824/67‑1 (MQ=255)

          cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                             <  1:5634821/69‑1 (MQ=255)

          cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                            <  1:3157432/70‑1 (MQ=255)

          cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGa                                                           >  1:728693/1‑71 (MQ=255)

             catAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                                                        >  1:3431730/3‑71 (MQ=255)

              atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                                    <  1:557120/57‑1 (MQ=255)

              atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCtt                                                       >  1:4084607/2‑71 (MQ=255)

              atAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCt                                                        <  1:1578500/69‑1 (MQ=255)

               tAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGtt                                                                   <  1:1038443/58‑1 (MQ=255)

                aGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                                     >  1:3618334/1‑70 (MQ=255)

                 gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTctg                                                    >  1:3853750/1‑69 (MQ=255)

                 gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                                     <  1:4171349/70‑2 (MQ=255)

                 gAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                                    >  1:4037584/1‑71 (MQ=255)

                  aaCATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcgc                                                   <  1:2846754/71‑1 (MQ=255)

                    cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                                                 >  1:2141943/1‑71 (MQ=255)

                    cATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGt                                                 <  1:4430440/71‑1 (MQ=255)

                    cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                                    >  1:3133129/1‑52 (MQ=255)

                    cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                              <  1:5451451/58‑1 (MQ=255)

                    cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                              <  1:4142501/58‑1 (MQ=255)

                      tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                               <  1:304919/69‑2 (MQ=255)

                      tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                               <  1:5685779/69‑2 (MQ=255)

                      tggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcg                                               <  1:4602582/69‑2 (MQ=255)

                      tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                               <  1:3810493/71‑1 (MQ=255)

                       ggCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTcgt                                              >  1:3469952/2‑69 (MQ=255)

                         cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                            <  1:2975721/71‑1 (MQ=255)

                           tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                                            <  1:1668496/69‑2 (MQ=255)

                           tcgtcgTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttt                                            <  1:102543/69‑2 (MQ=255)

                            cgtcgtCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGttta                                           <  1:1583054/69‑3 (MQ=255)

                              tcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTc                                       <  1:5644894/71‑1 (MQ=255)

                              tcgtcACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTc                                                <  1:4628986/62‑1 (MQ=255)

                                gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                                                       <  1:4729331/37‑1 (MQ=255)

                                gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                                     >  1:5584112/1‑71 (MQ=255)

                                 tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCt                                    <  1:1432638/71‑1 (MQ=255)

                                          tCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                            >  1:5461608/1‑70 (MQ=255)

                                           cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                          >  1:2278565/1‑71 (MQ=255)

                                           cTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTa                          >  1:3019898/1‑71 (MQ=255)

                                            tttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAc                         >  1:1110760/1‑71 (MQ=255)

                                             ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGc                               >  1:4955044/1‑64 (MQ=255)

                                             ttCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                            >  1:1723802/1‑67 (MQ=255)

                                               cgcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATc                                                         >  1:3234368/1‑36 (MQ=255)

                                                  ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   <  1:4699661/71‑1 (MQ=255)

                                                  ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   <  1:234870/71‑1 (MQ=255)

                                                   ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCAtt                           <  1:5163388/60‑1 (MQ=255)

                                                   ttaaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTc                  <  1:2611400/69‑1 (MQ=255)

                                                   gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   <  1:5256005/70‑1 (MQ=255)

                                                   gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTc                  <  1:1266388/71‑1 (MQ=255)

                                                    taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                                 <  1:2479176/54‑1 (MQ=255)

                                                    taaCCTGTTCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTaaa                                 <  1:2442884/54‑1 (MQ=255)

                                                    cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                               <  1:440975/41‑1 (MQ=255)

                                                    cAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCa                 >  1:5270196/1‑71 (MQ=255)

                                                     aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                               <  1:677582/40‑1 (MQ=255)

                                                     aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                <  1:3734483/71‑1 (MQ=255)

                                                     aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                <  1:5395818/71‑1 (MQ=255)

                                                     aaCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCAc                <  1:333592/71‑1 (MQ=255)

                                                      aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                                <  1:3953122/38‑1 (MQ=255)

                                                      aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTc                                                <  1:3042499/38‑1 (MQ=255)

                                                       ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                            >  1:2076823/1‑57 (MQ=255)

                                                       ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                        <  1:227153/61‑1 (MQ=255)

                                                        cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTc                                            >  1:2684931/1‑40 (MQ=255)

                                                        cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac             <  1:5101936/71‑1 (MQ=255)

                                                         tGATCCAGGAAGCGTTGCGCTTGATCTTCCGCGTCATTc                                            <  1:1818849/39‑1 (MQ=255)

                                                         tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac             >  1:1417998/1‑70 (MQ=255)

                                                          gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca           >  1:571443/3‑71 (MQ=255)

                                                          gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca           >  1:2647253/3‑71 (MQ=255)

                                                          gttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacca           >  1:5457012/3‑71 (MQ=255)

                                                          gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCt                                        <  1:5621368/42‑1 (MQ=255)

                                                          gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                                <  1:545302/50‑1 (MQ=255)

                                                          gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca           >  1:3731627/1‑71 (MQ=255)

                                                           ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccac          <  1:394704/70‑1 (MQ=255)

                                                           ttCCTGGAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGacc            <  1:3514483/68‑1 (MQ=255)

                                                           aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTAcc                        <  1:178907/57‑1 (MQ=255)

                                                           aTCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccac          <  1:1624623/71‑1 (MQ=255)

                                                            tCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCg                             >  1:3529392/1‑51 (MQ=255)

                                                              ctggAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGaccaccg        <  1:2123520/68‑2 (MQ=255)

                                                               tggAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGAt                     <  1:2787113/55‑1 (MQ=255)

                                                               aGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAAt      <  1:43334/71‑1 (MQ=255)

                                                                 gAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGaccacc         <  1:4235684/66‑1 (MQ=255)

                                                                 gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATg     <  1:2241059/70‑1 (MQ=255)

                                                                 gAAACGTTCAGCCTGATCTTCTGCGTCGTTTAATTCGCTAAAACCATTACCGATTTCACGACCACCGATg     <  1:2011664/70‑1 (MQ=255)

                                                                  aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                              >  1:2189832/1‑44 (MQ=255)

                                                                  aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   >  1:4831013/1‑55 (MQ=255)

                                                                  aaGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   >  1:2858329/1‑55 (MQ=255)

                                                                   aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa              >  1:2620785/1‑59 (MQ=255)

                                                                   aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag  <  1:391826/71‑1 (MQ=255)

                                                                   aGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATgaag  <  1:1850030/71‑1 (MQ=255)

                                                                    gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   <  1:3897859/53‑1 (MQ=255)

                                                                    gCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt                   <  1:33644/53‑1 (MQ=255)

ACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAG  >  minE/1933058‑1933195

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