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
A5 F21 I0 R2	316	65.6	5147759	97.4%	5013917	60.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	4,392,090	G→T	28.8%	L655M (CTG→ATG)	yjeP ←	predicted mechanosensitive channel

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	4,392,090	0	G	T	28.8%	134.6 / 33.2	59	L655M (CTG→ATG)	yjeP	predicted mechanosensitive channel
Reads supporting (aligned to +/- strand): ref base G (23/19); new base T (8/9); total (31/28)
Fisher's exact test for biased strand distribution p-value = 7.74e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01

ATCATCATGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATAAAGCA  >  W3110S.gb/4392026‑4392156

atcatcATGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAAt                                                              >  1:1554045/1‑71 (MQ=255)

atcatcATGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAAt                                                              >  1:3215082/1‑71 (MQ=255)

 tcatcaTGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATc                                                             <  1:659270/71‑1 (MQ=255)

   atcatGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATccc                                                           <  1:4561216/71‑1 (MQ=255)

      atGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGc                                                        >  1:4819017/1‑71 (MQ=255)

          tCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCttt                                                    >  1:581360/1‑71 (MQ=255)

           ccACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttt                                                    <  1:1171679/70‑1 (MQ=255)

           ccACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttt                                                    <  1:2328590/70‑1 (MQ=255)

            cacaGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttttt                                                  <  1:1349482/71‑1 (MQ=255)

            cacaGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttttt                                                  <  1:1821421/71‑1 (MQ=255)

                  atatGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCt                                            <  1:2505386/71‑1 (MQ=255)

                   tatGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttttt                                                  >  1:730067/1‑64 (MQ=255)

                   tatGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCgg                                                                 <  1:5143324/49‑1 (MQ=255)

                   tatGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCgg                                                                 <  1:2308284/49‑1 (MQ=255)

                     tggttggtAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAg                                         >  1:2111545/1‑71 (MQ=255)

                       gttggtAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAgg                                        >  1:4950680/1‑70 (MQ=255)

                       gttggtAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAgg                                        <  1:2341953/70‑1 (MQ=255)

                        ttggtAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGt                                      <  1:1717963/71‑1 (MQ=255)

                        ttggtAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCGTTTTCAGGCTGAGGGt                                      <  1:1392313/71‑1 (MQ=255)

                                gttgtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGaccac                                >  1:2577017/1‑69 (MQ=255)

                                gttgtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGaccac                                >  1:2583288/1‑69 (MQ=255)

                                gttgtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGaccac                                >  1:4810437/1‑69 (MQ=255)

                                gttgtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGac                                   >  1:1871693/1‑66 (MQ=255)

                                 ttgtCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttttt                                                  >  1:4828265/1‑50 (MQ=255)

                                 ttgtCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCttttt                                                  >  1:3017079/1‑50 (MQ=255)

                                 ttgtCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGac                                   >  1:260629/1‑65 (MQ=255)

                                 ttgtCGCCGCTGCCCTCTTTGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGc                             >  1:1062857/1‑71 (MQ=255)

                                 ttgtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGc                             >  1:2877447/1‑71 (MQ=255)

                                 ttgtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGc                             >  1:425298/1‑71 (MQ=255)

                                   gtCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGc                             >  1:659188/1‑69 (MQ=255)

                                           tGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCttt                                                    <  1:3040668/38‑1 (MQ=255)

                                             cccTCTTTGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCa                 <  1:530133/71‑1 (MQ=255)

                                             cccTCTTTGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCa                 <  1:4258947/71‑1 (MQ=255)

                                             cccTCTTTGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCa                 <  1:4587056/71‑1 (MQ=255)

                                             cccTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCt                                            <  1:1255481/44‑1 (MQ=255)

                                             cccTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCt                                            <  1:1931378/44‑1 (MQ=255)

                                             cccTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGc                  <  1:4951309/70‑1 (MQ=255)

                                               ctctTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGacc                                  <  1:1854818/52‑1 (MQ=255)

                                                tctTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGacc                                  <  1:3778721/51‑1 (MQ=255)

                                                 ctTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAAt              >  1:4625491/1‑70 (MQ=255)

                                                  tttGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAAt              >  1:1486051/1‑69 (MQ=255)

                                                  tttGTTGAGATACATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAAt              <  1:4541205/69‑1 (MQ=255)

                                                  tttGTTGAGATACAGCGGAATCCCGGCCTTTTTCa                                                >  1:752775/1‑35 (MQ=255)

                                                  tttGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAAt              >  1:3815693/1‑69 (MQ=255)

                                                  tttGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAAt              >  1:2860377/1‑69 (MQ=255)

                                                    tgttgAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGa            <  1:4327752/69‑1 (MQ=255)

                                                           aTACAGGGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaag    >  1:658736/1‑70 (MQ=255)

                                                           aTACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCa                      >  1:3225959/1‑52 (MQ=255)

                                                           aTACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaag    >  1:4580410/1‑70 (MQ=255)

                                                           aTACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaag    >  1:833171/1‑70 (MQ=255)

                                                           aTACAGCGGAATCCCGGCCTATTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaag    >  1:2855682/1‑70 (MQ=255)

                                                            tACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATa       <  1:3428480/66‑1 (MQ=255)

                                                            tACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATa       <  1:2399798/66‑1 (MQ=255)

                                                            tACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATa       <  1:2207924/66‑1 (MQ=255)

                                                             aCATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaagca  >  1:4148696/1‑70 (MQ=255)

                                                             aCATCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaagca  >  1:3157848/1‑70 (MQ=255)

                                                             aCAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATaaagca  >  1:4006039/1‑70 (MQ=255)

                                                               aGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGAt        <  1:527245/62‑1 (MQ=255)

                                                               aGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGAt        <  1:3444084/62‑1 (MQ=255)

ATCATCATGTTCCACAGCATATGGTTGGTAATGTTGTCGCCGCTGCCCTCTTTGTTGAGATACAGCGGAATCCCGGCCTTTTTCAGGCTGAGGGTGACCACCGCCAGCGCACCGCAAATGAGGATAAAGCA  >  W3110S.gb/4392026‑4392156

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A