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 R2	370	72.1	3738297	91.5%	3420541	62.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,933,117	A→T	5.8%	D442E (GAT→GAA)	lysS ←	lysine tRNA synthetase, constitutive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,933,117	0	A	T	5.8%	252.8 / 6.0	86	D442E (GAT→GAA)	lysS	lysine tRNA synthetase, constitutive
Reads supporting (aligned to +/- strand): ref base A (37/44); new base T (2/3); total (39/47)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.24e-01

CAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCA  >  minE/1933048‑1933186

cAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGa                                                                       <  1:3269500/70‑1 (MQ=255)

 aGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                     >  1:1103143/1‑71 (MQ=255)

 aGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                     <  1:2998201/71‑1 (MQ=255)

  gTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                                    <  1:1522501/71‑1 (MQ=255)

  gTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATcc                                                                    <  1:3042917/71‑1 (MQ=255)

   tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                     >  1:428054/1‑69 (MQ=255)

   tGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCa                                                                   <  1:1812253/71‑1 (MQ=255)

     cGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                     >  1:1443407/1‑67 (MQ=255)

     cGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAg                                                                  >  1:1657954/1‑70 (MQ=255)

      ggTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGa                                                                <  1:329462/71‑1 (MQ=255)

      ggTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGa                                                                <  1:3274528/71‑1 (MQ=255)

      ggTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGa                                                                <  1:63412/71‑1 (MQ=255)

        tGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                     <  1:3302034/64‑1 (MQ=255)

        tGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATc                                                                     <  1:2559082/64‑1 (MQ=255)

          aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                             <  1:3032348/70‑1 (MQ=255)

          aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGc                                                             <  1:3302403/70‑1 (MQ=255)

          aCGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCg                                                            >  1:2173432/1‑71 (MQ=255)

           cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                           >  1:1458125/1‑71 (MQ=255)

           cGTAATCTTCGTCATAGAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGt                                                           >  1:362217/1‑71 (MQ=255)

           cGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                           <  1:145945/71‑1 (MQ=255)

           cGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                           <  1:32075/71‑1 (MQ=255)

             tAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTg                                                         <  1:203329/71‑1 (MQ=255)

             tAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTg                                                         >  1:1401504/1‑71 (MQ=255)

              aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAg                                                                  >  1:1231354/1‑61 (MQ=255)

              aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAg                                                                  >  1:3703943/1‑61 (MQ=255)

              aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                        >  1:533772/1‑71 (MQ=255)

              aaTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgc                                                        >  1:3236910/1‑71 (MQ=255)

               aTCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcg                                                       >  1:3440040/1‑71 (MQ=255)

                  ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGa                                                                       >  1:1545752/1‑52 (MQ=255)

                  ttCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGa                                                                       >  1:3635250/1‑52 (MQ=255)

                   tCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                    >  1:3617230/1‑70 (MQ=255)

                    cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                                      >  1:1914762/1‑67 (MQ=255)

                    cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                                      >  1:579646/1‑67 (MQ=255)

                    cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTgcgc                                                      <  1:583430/67‑1 (MQ=255)

                    cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGcc                                                     <  1:2997881/68‑1 (MQ=255)

                    cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                    <  1:1402321/69‑1 (MQ=255)

                    cATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCt                                                    <  1:2874433/69‑1 (MQ=255)

                     aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                   <  1:1111011/69‑1 (MQ=255)

                     aTCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                   <  1:555642/69‑1 (MQ=255)

                         tAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                   <  1:1001371/65‑1 (MQ=255)

                         tAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTc                                             >  1:1351967/1‑71 (MQ=255)

                           gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                            <  1:620064/70‑2 (MQ=255)

                           gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                            <  1:3668796/70‑2 (MQ=255)

                           gAACATGGCTTCGTCGTCACCTGCAGCTTTAGCATTAACCTGTTCCTGGAAACGTTCAGCCTGATCTTct                                            <  1:1929007/70‑2 (MQ=255)

                           gAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                           >  1:132471/1‑71 (MQ=255)

                           gAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCcg                                           <  1:2842864/71‑1 (MQ=255)

                              cATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAg                                                              >  1:459341/1‑49 (MQ=255)

                                tCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCa                                      <  1:1515315/71‑1 (MQ=255)

                                  gCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                    <  1:3721822/71‑1 (MQ=255)

                                   cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                    <  1:3697729/70‑1 (MQ=255)

                                   cTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                    <  1:1217093/70‑1 (MQ=255)

                                     tcgtcgTCACTTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAg                                 >  1:697240/1‑71 (MQ=255)

                                     tcgtcgTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAg                                 >  1:1412372/1‑71 (MQ=255)

                                      cgtcgtCACCTGCGTCTTTCGCGGCAACCTGATCCa                                                                   <  1:1345239/36‑1 (MQ=255)

                                      cgtcgtCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCa                                  <  1:1258963/69‑1 (MQ=255)

                                       gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                                <  1:3613428/70‑1 (MQ=255)

                                       gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                                <  1:2839302/70‑1 (MQ=255)

                                       gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                                <  1:3617753/70‑1 (MQ=255)

                                       gtcgtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGc                                <  1:2069330/70‑1 (MQ=255)

                                          gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                            <  1:1010574/71‑1 (MQ=255)

                                          gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                            <  1:1563464/71‑1 (MQ=255)

                                          gtcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                            >  1:1750396/1‑71 (MQ=255)

                                           tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGt                                                           <  1:802717/39‑1 (MQ=255)

                                           tcACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGc                            >  1:3115832/1‑70 (MQ=255)

                                            cACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTg                                                   <  1:2378735/46‑1 (MQ=255)

                                               cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                       >  1:3469767/1‑71 (MQ=255)

                                               cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                       <  1:2981397/71‑1 (MQ=255)

                                               cTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                       >  1:754459/1‑71 (MQ=255)

                                               cTGCGTCTTTCGAGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAg                       >  1:1614046/1‑71 (MQ=255)

                                                tGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTc                                             <  1:3439401/48‑1 (MQ=255)

                                                 gCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGcc                     >  1:636305/1‑71 (MQ=255)

                                                   gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                   >  1:2522874/1‑71 (MQ=255)

                                                   gTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGt                   >  1:1159005/1‑71 (MQ=255)

                                                          gcgGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAt            <  1:2583566/71‑1 (MQ=255)

                                                            ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt          >  1:297682/1‑71 (MQ=255)

                                                            ggCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt          <  1:2997836/71‑1 (MQ=255)

                                                             gCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGAttt          >  1:1889561/1‑70 (MQ=255)

                                                                aCCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTaaa                        <  1:347413/53‑1 (MQ=255)

                                                                aCCTGATCCAGGAAGCGTTGCGCCTCATCTTCCGCGTCAtt                                    >  1:864233/1‑41 (MQ=255)

                                                                 ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGGGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACg      <  1:1656769/70‑1 (MQ=255)

                                                                 ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCAtt                                    <  1:2395289/40‑1 (MQ=255)

                                                                 ccTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGa     >  1:49977/1‑71 (MQ=255)

                                                                  cTGATCCAGGAGGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac    >  1:1029600/1‑71 (MQ=255)

                                                                  cTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTa                          <  1:2341047/49‑1 (MQ=255)

                                                                   tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac    >  1:1630484/1‑70 (MQ=255)

                                                                   tGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac    >  1:1201758/1‑70 (MQ=255)

                                                                    gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca  >  1:3511228/1‑71 (MQ=255)

                                                                    gATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGac    >  1:2149550/1‑69 (MQ=255)

                                                                    gATCCAGGAAGCGTTGCGCCTGATCTTCAGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGacca  >  1:2737920/1‑71 (MQ=255)

CAGTGCGGTGACGTAATCTTCATCGTAGAACATCGCTTCGTCGTCACCTGCGTCTTTCGCGGCAACCTGATCCAGGAAGCGTTGCGCCTGATCTTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCA  >  minE/1933048‑1933186

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