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	1,132,803	G→A	40.0%	intergenic (+119/‑38)	arpB → / → yniD	ECK1718:JW5278+JW1710:b4494; hypothetical protein/hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,132,803	0	G	A	40.0%	65.7 / 98.6	85	intergenic (+119/‑38)	arpB/yniD	ECK1718:JW5278+JW1710:b4494; hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand): ref base G (29/22); new base A (11/23); total (40/45)
Fisher's exact test for biased strand distribution p-value = 2.96e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.15e-01

GAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAAC  >  minE/1132739‑1132868

gAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCtt                                                             <  1:1284869/71‑1 (MQ=255)

gAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCtt                                                             <  1:3336919/71‑1 (MQ=255)

 aaaCAGTGACCATGTGCATAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTTATGCCTGTCCCttt                                                            <  1:788277/71‑1 (MQ=255)

 aaaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                            >  1:1044976/1‑71 (MQ=255)

 aaaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                            <  1:523548/71‑1 (MQ=255)

  aaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCtttt                                                           <  1:3861951/71‑1 (MQ=255)

  aaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                            <  1:2119862/70‑1 (MQ=255)

  aaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                            <  1:2581853/70‑1 (MQ=255)

  aaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                            <  1:1825760/70‑1 (MQ=255)

  aaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCttt                                                            <  1:2167739/70‑1 (MQ=255)

  aaCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCtttt                                                           >  1:593264/1‑71 (MQ=255)

   aCAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTg                                                          >  1:1999260/1‑71 (MQ=255)

    cAGTGACCATGTGCACAACTCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGt                                                         <  1:1570329/71‑1 (MQ=255)

    cAGTGACCATGTGCACAACGCCACCCTACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGt                                                         <  1:2320860/71‑1 (MQ=255)

     aGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGt                                                         <  1:585196/70‑1 (MQ=255)

     aGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGt                                                         >  1:3162350/1‑70 (MQ=255)

     aGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGt                                                         >  1:3538779/1‑70 (MQ=255)

      gTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCttt                                                            <  1:3850357/66‑1 (MQ=255)

           cATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTacac                                                    <  1:1532956/69‑1 (MQ=255)

           cATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACt                                                   <  1:2488128/70‑1 (MQ=255)

            aTGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTcc                                                 >  1:1604950/1‑71 (MQ=255)

             tgtgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCg                                                >  1:824825/1‑71 (MQ=255)

             tgtgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCg                                                >  1:829782/1‑71 (MQ=255)

               tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGt                                               >  1:2458703/1‑70 (MQ=255)

               tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGt                                               <  1:403202/70‑1 (MQ=255)

               tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGt                                               <  1:1772698/70‑1 (MQ=255)

               tgCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGt                                               <  1:2098443/70‑1 (MQ=255)

                  acaACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTa                                                       >  1:2665278/1‑59 (MQ=255)

                  acaACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTAt                                            >  1:3007795/1‑70 (MQ=255)

                  acaACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTAt                                            >  1:1005444/1‑70 (MQ=255)

                   caACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATc                                           >  1:1354075/1‑70 (MQ=255)

                   caACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                          >  1:3662034/1‑71 (MQ=255)

                   caACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                          >  1:3145001/1‑71 (MQ=255)

                     aCGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACg                                        >  1:2491977/1‑71 (MQ=255)

                         cACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGcaca                                    <  1:2132996/71‑1 (MQ=255)

                            ccGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGtt                                              <  1:1688833/58‑1 (MQ=255)

                              gACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACaa                                   >  1:1309106/1‑67 (MQ=255)

                              gACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACaa                                   >  1:1675552/1‑67 (MQ=255)

                              gACGGCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAgaga                               <  1:1926118/71‑1 (MQ=255)

                               aCGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAgaga                               >  1:3339102/1‑70 (MQ=255)

                                 ggCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGatat                            >  1:2726534/1‑71 (MQ=255)

                                  gCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                           <  1:457030/71‑1 (MQ=255)

                                  gCTGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATg                           <  1:3072925/71‑1 (MQ=255)

                                    tGTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAgaga                               <  1:523291/65‑1 (MQ=255)

                                     gTAATAACAAAAAATCCCTTGATGCCTATCCCTTTTGt                                                         <  1:1980769/38‑1 (MQ=255)

                                      taataaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                        >  1:516506/1‑70 (MQ=255)

                                      taataaCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAg                        >  1:210695/1‑70 (MQ=255)

                                        ataaCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                      >  1:3026988/1‑70 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTaca                                                     >  1:171356/1‑38 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTaca                                                     >  1:3870075/1‑38 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTaca                                                     >  1:30228/1‑38 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTaca                                                     >  1:2043427/1‑38 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTaca                                                     >  1:1402460/1‑38 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGtt                                              <  1:1316286/45‑1 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGtt                                              <  1:695136/45‑1 (MQ=255)

                                         taaCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGtt                                              <  1:3262809/45‑1 (MQ=255)

                                           aCAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACt                  >  1:1492024/1‑71 (MQ=255)

                                           aCAAAAAATCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACt                  >  1:471575/1‑71 (MQ=255)

                                            cAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                      >  1:3151715/1‑66 (MQ=255)

                                            cAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGa                      >  1:2895593/1‑66 (MQ=255)

                                             aaaaaaTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                <  1:1359404/71‑1 (MQ=255)

                                             aaaaaaTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                <  1:2386769/71‑1 (MQ=255)

                                              aaaaaTCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                <  1:4003660/70‑1 (MQ=255)

                                              aaaaaTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                <  1:2086266/70‑1 (MQ=255)

                                              aaaaaTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTgg                <  1:2262913/70‑1 (MQ=255)

                                                aaaTCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTAt             <  1:1820914/71‑1 (MQ=255)

                                                aaaTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTAt             <  1:2464864/71‑1 (MQ=255)

                                                  aTCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCAc                                         <  1:2447028/41‑1 (MQ=255)

                                                   tCCCTTGATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGcc          <  1:2598068/71‑1 (MQ=255)

                                                       ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                          <  1:2531794/35‑1 (MQ=255)

                                                       ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                          <  1:3354662/35‑1 (MQ=255)

                                                       ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                          <  1:2453887/35‑1 (MQ=255)

                                                       ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCa                                          <  1:2923641/35‑1 (MQ=255)

                                                       ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGAc       >  1:918072/1‑70 (MQ=255)

                                                       ttGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGAc       >  1:1843295/1‑70 (MQ=255)

                                                        tGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACt      >  1:2664752/1‑70 (MQ=255)

                                                        tGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACt      >  1:1126825/1‑70 (MQ=255)

                                                         gATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGata                             >  1:3399309/1‑46 (MQ=255)

                                                         gATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGata                             >  1:2916284/1‑46 (MQ=255)

                                                         gATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGata                             >  1:2019029/1‑46 (MQ=255)

                                                         gATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGata                             >  1:1005678/1‑46 (MQ=255)

                                                         gATGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTa     <  1:3787565/70‑1 (MQ=255)

                                                          aTGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaaa   <  1:3931786/71‑1 (MQ=255)

                                                          aTGCCTATCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTaaa   <  1:529532/71‑1 (MQ=255)

                                                           tGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAAc  <  1:3383253/71‑1 (MQ=255)

GAAACAGTGACCATGTGCACAACGCCACCCGACGGCTGTAATAACAAAAAATCCCTTGATGCCTGTCCCTTTTGTTACACTCCGTTATCACGCACAAGAGATATGCAGGACACTGGTATGCCGACTAAAC  >  minE/1132739‑1132868

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A