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	4,000,389	A→G	41.1%	intergenic (‑83/‑308)	uspA ← / → yhiO	universal stress global response regulator/predicted universal stress (ethanol tolerance) protein B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	4,000,389	0	A	G	41.1%	36.9 / 91.4	73	intergenic (‑83/‑308)	uspA/yhiO	universal stress global response regulator/predicted universal stress (ethanol tolerance) protein B
Reads supporting (aligned to +/- strand): ref base A (20/23); new base G (14/16); total (34/39)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.03e-01

CCATAAAGTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGACCCGGAT  >  W3110S.gb/4000320‑4000458

ccATAAAGTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGATCTAc                                                                      >  1:1497418/1‑71 (MQ=255)

     aaGTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACtgcgtgcg                                                                 <  1:2929586/71‑1 (MQ=255)

     aaGTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACtgcgtgcg                                                                 <  1:567772/71‑1 (MQ=255)

       gTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGcgcg                                                               >  1:2442494/1‑71 (MQ=255)

       gTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGcgcg                                                               >  1:1784857/1‑71 (MQ=255)

       gTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGcgcg                                                               >  1:1099724/1‑71 (MQ=255)

       gTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGcgcg                                                               >  1:810049/1‑71 (MQ=255)

       gTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGACACCCGCGTCCTGCGAACTACGTGcgcg                                                               <  1:632672/71‑1 (MQ=255)

             gATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTa                                                         <  1:823790/71‑1 (MQ=255)

              aTGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTaa                                                        <  1:815144/71‑1 (MQ=255)

              aTGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTg                                                                   <  1:2697092/60‑1 (MQ=255)

              aTGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTg                                                                   <  1:2269909/60‑1 (MQ=255)

                gACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAAcc                                                      >  1:2054704/1‑71 (MQ=255)

                        aGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTa                                              <  1:850216/71‑1 (MQ=255)

                         gCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTgcgc                                                                <  1:3230885/52‑1 (MQ=255)

                         gCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTaa                                             <  1:1252287/71‑1 (MQ=255)

                          cTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTaaa                                            <  1:1895501/71‑1 (MQ=255)

                           tAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTaaa                                            <  1:1225854/70‑1 (MQ=255)

                            aGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTaa                                             >  1:588872/1‑68 (MQ=255)

                            aGCGTTTCTTGTGCCCTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTa                                              >  1:4215921/1‑67 (MQ=255)

                             gCGTTTCTTGTGCCGTTACGTCACCGGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGa                                          <  1:334140/70‑1 (MQ=255)

                             gCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGa                                          >  1:824186/1‑70 (MQ=255)

                             gCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGAt                                         >  1:2555631/1‑71 (MQ=255)

                                tttCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGAtt                                        <  1:2207582/69‑1 (MQ=255)

                                 ttCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTgcg                                                                 <  1:616533/43‑1 (MQ=255)

                                  tCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTgcg                                                                 >  1:1980183/1‑42 (MQ=255)

                                  tCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTaa                                                        >  1:2436928/1‑51 (MQ=255)

                                  tCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAgt                                    >  1:4079258/1‑71 (MQ=255)

                                   cTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGAtt                                        <  1:1942837/66‑1 (MQ=255)

                                   cTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAgt                                    >  1:3967111/1‑70 (MQ=255)

                                   cTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAgtg                                   >  1:2291290/1‑71 (MQ=255)

                                   cTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAgtg                                   >  1:3208754/1‑71 (MQ=255)

                                    ttGTGCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGAtt                                        <  1:4861719/65‑1 (MQ=255)

                                    ttGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAgtgt                                  >  1:960298/1‑71 (MQ=255)

                                      gtgCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGtt                                 <  1:3761349/70‑1 (MQ=255)

                                      gtgCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCTTAAAGATTCAGTGtt                                 <  1:2385041/70‑1 (MQ=255)

                                       tgCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTaa                               <  1:2460855/71‑1 (MQ=255)

                                        gCCGTTACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTaa                               <  1:3609935/70‑1 (MQ=255)

                                            ttACGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCa                                      <  1:2781101/59‑1 (MQ=255)

                                            ttACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAg                                     <  1:1223627/60‑1 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCAt                         <  1:2816152/70‑1 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCAt                         <  1:4205231/70‑1 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATc                        >  1:3733936/1‑71 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATc                        >  1:494071/1‑71 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCa                                      >  1:2147786/1‑57 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCAt                         <  1:3039878/70‑1 (MQ=255)

                                              aCGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATc                        >  1:2553921/1‑71 (MQ=255)

                                                gTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATcct                      <  1:2192168/71‑1 (MQ=255)

                                                gTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATcct                      <  1:3772529/71‑1 (MQ=255)

                                                 tCACCCGCGTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATcctt                     <  1:1383443/71‑1 (MQ=255)

                                                   aCCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttac                   >  1:4235794/1‑71 (MQ=255)

                                                      cgcgTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttacctt                <  1:587599/71‑1 (MQ=255)

                                                      cgcgTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttacct                 >  1:4918060/1‑70 (MQ=255)

                                                      cgcgTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttacct                 >  1:1367277/1‑70 (MQ=255)

                                                       gcgTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttacctta               >  1:915988/1‑71 (MQ=255)

                                                        cgTCCTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTtat              <  1:4808123/71‑1 (MQ=255)

                                                        cgTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTtat              <  1:948791/71‑1 (MQ=255)

                                                            cTGCGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGc           >  1:5139409/1‑70 (MQ=255)

                                                            cTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGc           >  1:4971907/1‑70 (MQ=255)

                                                             tGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATcctt                     <  1:4869881/59‑1 (MQ=255)

                                                             tGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTtat              <  1:1900689/66‑1 (MQ=255)

                                                             tGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTtat              <  1:3377885/66‑1 (MQ=255)

                                                             tGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGc           <  1:4280170/69‑1 (MQ=255)

                                                              gCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGAc        >  1:3587253/1‑71 (MQ=255)

                                                               cGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGAcc                           >  1:496943/1‑51 (MQ=255)

                                                               cGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGAc        <  1:5082814/70‑1 (MQ=255)

                                                               cGAACTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTAAGTGTTAAGAcc                           >  1:1365890/1‑51 (MQ=255)

                                                               cGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGAcc       >  1:1244938/1‑71 (MQ=255)

                                                                 aaCTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttac                   >  1:4381254/1‑57 (MQ=255)

                                                                 aaCTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATccttac                   >  1:1356376/1‑57 (MQ=255)

                                                                 aaCTGCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGACCCg     <  1:3074737/71‑1 (MQ=255)

                                                                 aaCTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGc           <  1:3404479/65‑1 (MQ=255)

                                                                 aaCTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGc           <  1:1959081/65‑1 (MQ=255)

                                                                   cTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGACCCGga   >  1:2750290/1‑71 (MQ=255)

                                                                    tACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGtt                                 <  1:1013398/40‑1 (MQ=255)

                                                                     aCGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGACCCGgat  >  1:3639302/1‑70 (MQ=255)

CCATAAAGTTGTCGATGACTGGCCAGCTAGCGTTTCTTGTGCCGTTACGTCACCCGCGTCCTGCGAACTACGTGCGCGGGGCTAACCCAGCCGTAAAGATTCAGTGTTAAGACCATCCTTACCTTATAGCGACCCGGAT  >  W3110S.gb/4000320‑4000458

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