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 F17 I0 R2	276	45.3	3729697	93.0%	3468618	60.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	470,819	A→G	55.7%	E320E (GAA→GAG)	mdlB →	fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	470,819	0	A	G	55.7%	20.6 / 79.1	61	E320E (GAA→GAG)	mdlB	fused predicted multidrug transporter subunits and ATP binding components of ABC superfamily
Reads supporting (aligned to +/- strand): ref base A (10/17); new base G (14/20); total (24/37)
Fisher's exact test for biased strand distribution p-value = 7.96e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.59e-01

AATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCACCATC  >  W3110S.gb/470753‑470882

aaTCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCt                                                               <  1:3653035/69‑1 (MQ=255)

   cGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGa                                                             >  1:2647551/1‑68 (MQ=255)

      aCTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATgga                                                         <  1:218068/69‑1 (MQ=255)

      aCTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATgga                                                         <  1:2065332/69‑1 (MQ=255)

      aCTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATgga                                                         <  1:41796/69‑1 (MQ=255)

      aCTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATgga                                                         >  1:1649741/1‑69 (MQ=255)

      aCTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATgga                                                         >  1:1940462/1‑69 (MQ=255)

          aCCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATggacgga                                                     >  1:2668061/1‑69 (MQ=255)

          aCCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATggacgga                                                     >  1:3024970/1‑69 (MQ=255)

            cACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATggacggac                                                    <  1:2990124/68‑1 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:428255/1‑68 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:869139/1‑68 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:2730747/1‑68 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:2215400/1‑68 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:2311105/1‑68 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:3393020/1‑68 (MQ=255)

                   cAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCa                                             >  1:2544456/1‑68 (MQ=255)

                     ggCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGc                                           >  1:2040372/1‑68 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:2623773/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:3208975/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:2753623/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:75651/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:3554995/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:3618868/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCaa                                         <  1:485304/69‑1 (MQ=255)

                      gCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCaa                                         <  1:743182/69‑1 (MQ=255)

                           gctgcAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCaa                                         >  1:3392304/1‑64 (MQ=255)

                                           gttgCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAat                                <  1:1840046/57‑1 (MQ=255)

                                           gttgCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAat                                <  1:2724153/57‑1 (MQ=255)

                                           gttgCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGccc                     >  1:816937/1‑68 (MQ=255)

                                           gttgCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGAAATATGGCAATGATGATCGccc                     >  1:2769226/1‑68 (MQ=255)

                                              gCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGtt                  <  1:576258/68‑1 (MQ=255)

                                                 ggTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACa               <  1:3637581/68‑1 (MQ=255)

                                                 ggTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACa               <  1:1039681/68‑1 (MQ=255)

                                                 ggTGAGCGCGTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACa               <  1:2983138/68‑1 (MQ=255)

                                                 ggTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACag              <  1:987048/69‑1 (MQ=255)

                                                 ggTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACag              <  1:1420679/69‑1 (MQ=255)

                                                 ggTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACa               <  1:2162115/68‑1 (MQ=255)

                                                   tGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAatgat                             <  1:1947079/52‑1 (MQ=255)

                                                       cgcgTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAatga                              >  1:304473/1‑47 (MQ=255)

                                                       cgcgTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGc        >  1:750722/1‑69 (MQ=255)

                                                       cgcgTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGc        >  1:1792139/1‑69 (MQ=255)

                                                        gcgTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACag              >  1:2364058/1‑62 (MQ=255)

                                                        gcgTGTTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACag              >  1:2631096/1‑62 (MQ=255)

                                                          gtgtTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            <  1:1595696/46‑1 (MQ=255)

                                                          gtgtTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            <  1:2737995/46‑1 (MQ=255)

                                                          gtgtTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            <  1:2028340/46‑1 (MQ=255)

                                                          gtgtTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            <  1:3685918/46‑1 (MQ=255)

                                                          gtgtTTGAGCTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            <  1:399189/46‑1 (MQ=255)

                                                          gtgtTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACag              <  1:3464490/60‑1 (MQ=255)

                                                          gtgtTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACag              <  1:1797007/60‑1 (MQ=255)

                                                          gtgtTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCAcc     <  1:526669/69‑1 (MQ=255)

                                                           tgtTTGAGCTGATGGACGGACCTCGCCAGCAATATGGCAatgatt                            <  1:1019676/45‑2 (MQ=255)

                                                           ggtTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCAcc     <  1:3372124/67‑1 (MQ=255)

                                                             tttGAACTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            >  1:1753776/1‑43 (MQ=255)

                                                             tttGAACTGATGGACGGACCGCGCCAGCAATATGGCAatgatg                            >  1:3475686/1‑43 (MQ=255)

                                                             tttGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCACCATc  <  1:2164020/69‑1 (MQ=255)

                                                             tttGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCACCATc  <  1:3248610/69‑1 (MQ=255)

                                                             tttGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCACCATc  <  1:1235843/69‑1 (MQ=255)

                                                             tttGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCACCATc  <  1:2840331/69‑1 (MQ=255)

                                                               tGAGCTGATGGACGGACAGCGCCAGCAATATGGCAatgat                             >  1:3514152/1‑40 (MQ=37)

AATCGAACTGACCACGCAACAGGCGATGCTGCAACAGGCTGTTGTTGCTGGTGAGCGCGTGTTTGAACTGATGGACGGACCGCGCCAGCAATATGGCAATGATGATCGCCCGTTACAGAGTGGCACCATC  >  W3110S.gb/470753‑470882

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A