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	1,887,874	T→C	75.0%	F106L (TTT→CTT)	yeaX →	predicted oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	1,887,874	0	T	C	75.0%	118.4 / 39.9	64	F106L (TTT→CTT)	yeaX	predicted oxidoreductase
Reads supporting (aligned to +/- strand): ref base T (8/8); new base C (28/20); total (36/28)
Fisher's exact test for biased strand distribution p-value = 5.76e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.71e-01

TCCCGCTTTTTGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCACCCCTTTC  >  W3110S.gb/1887808‑1887939

tCCCGCTTTTTGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGctt                                                                 >  1:2691919/1‑69 (MQ=255)

 cccGCTTTTTGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGctt                                                                 >  1:3479270/1‑68 (MQ=255)

 cccGCTTTTTGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTg                                                                >  1:1348502/1‑69 (MQ=255)

    gCTTTTTGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTgcg                                                              >  1:1161194/1‑68 (MQ=255)

      tttttGCATCAGCAGGTAAAAGTTGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTa                                                           <  1:3409863/69‑1 (MQ=255)

      tttttGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTa                                                           <  1:1508517/69‑1 (MQ=255)

      tttttGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTa                                                           <  1:3464106/69‑1 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCt                                                            <  1:152168/58‑1 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCt                                                            >  1:435604/1‑58 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCa                                                  >  1:2422862/1‑68 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCa                                                  >  1:2405153/1‑68 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCa                                                  >  1:2796566/1‑68 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCa                                                  >  1:3052923/1‑68 (MQ=255)

                agcagGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCa                                                  >  1:3283166/1‑68 (MQ=255)

                       aaaaGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGaa                                           >  1:1059058/1‑68 (MQ=255)

                       aaaaGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGaa                                           >  1:2193560/1‑68 (MQ=255)

                       aaaaGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGaa                                           >  1:3692396/1‑68 (MQ=255)

                        aaaGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCt                                                            <  1:959227/50‑1 (MQ=255)

                        aaaGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTa                                                           <  1:615870/51‑1 (MQ=255)

                          aGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCa                                       >  1:3611845/1‑69 (MQ=255)

                              ggCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCt                                                            >  1:2284228/1‑44 (MQ=255)

                              ggCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAAtt                                                        >  1:709097/1‑48 (MQ=255)

                              ggCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAAtt                                                        >  1:1070562/1‑48 (MQ=255)

                              ggCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAAtt                                                        >  1:1482123/1‑48 (MQ=255)

                              ggCGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAAtt                                                        >  1:225004/1‑48 (MQ=255)

                                cGATCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGtt                                 <  1:696540/69‑1 (MQ=255)

                                  aTCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTa                                                           <  1:2619407/41‑1 (MQ=255)

                                   tCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTAt                              >  1:626525/1‑69 (MQ=255)

                                   tCGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTAt                              >  1:221543/1‑69 (MQ=255)

                                    cGGTTAACGATTTCAACGCCTAATAACCTGCTTGCGCt                                                            >  1:613865/1‑38 (MQ=255)

                                     ggTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAg                                                 >  1:3628953/1‑48 (MQ=255)

                                     ggTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGc                                                >  1:915836/1‑49 (MQ=255)

                                     ggTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGc                                                >  1:2139035/1‑49 (MQ=255)

                                     ggTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGc                                                >  1:3285393/1‑49 (MQ=255)

                                     ggTTAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATcg                            >  1:3115333/1‑69 (MQ=255)

                                        tAACGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcgg                         >  1:847394/1‑69 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcggg                        >  1:1347773/1‑69 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcggg                        >  1:477368/1‑69 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGGATCTGttt                                <  1:555557/61‑1 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCAt                                      <  1:2600919/55‑1 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCAt                                      <  1:3464128/55‑1 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCAt                                      <  1:1707920/55‑1 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCAt                                      <  1:3497113/55‑1 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGttt                                >  1:3194932/1‑61 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGttt                                >  1:2250003/1‑61 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGttt                                >  1:262683/1‑61 (MQ=255)

                                         aaCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcggg                        <  1:437951/69‑1 (MQ=255)

                                          aCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCAt                                      <  1:2685161/54‑1 (MQ=255)

                                          aCGATTTCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCAt                                      <  1:1913556/54‑1 (MQ=255)

                                           cGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcgggc                       <  1:3198911/68‑1 (MQ=255)

                                           cGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcgggc                       <  1:3171777/68‑1 (MQ=255)

                                            gATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCgcgggcgg                     <  1:1666253/69‑1 (MQ=255)

                                             aTTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGt                    >  1:2752804/1‑69 (MQ=255)

                                                tCAACGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTAtt                 >  1:2421725/1‑69 (MQ=255)

                                                    cGCCTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGt              <  1:3390627/68‑1 (MQ=255)

                                                      ccTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTAt            <  1:3546007/68‑1 (MQ=255)

                                                      ccTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTAt            <  1:2827573/68‑1 (MQ=255)

                                                      ccTAATAACCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTAt            <  1:282682/68‑1 (MQ=255)

                                                         aataaCCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCAcc        <  1:2036287/69‑1 (MQ=255)

                                                          ataaCCTGTTTGCGCTAATTCCCTCAGCCATAAAGCa                                       <  1:422587/37‑1 (MQ=255)

                                                          ataaCCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCa                                       <  1:1963402/37‑1 (MQ=255)

                                                          ataaCCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCa                                       <  1:1651974/37‑1 (MQ=255)

                                                             aCCTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCACCCCtt    >  1:2961954/1‑69 (MQ=255)

                                                               cTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCACCCCttt   <  1:3316688/68‑1 (MQ=255)

                                                               cTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCACCCCTTTc  >  1:2831672/1‑69 (MQ=255)

                                                               cTGCTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCACCCCTTTc  >  1:2310486/1‑69 (MQ=255)

TCCCGCTTTTTGCATCAGCAGGTAAAAGTGGGCGATCGGTTAACGATTTCAACGCCTAATAACCTGTTTGCGCTAATTCCCTCAGCCAGAAAGCATCTGTTTATCGCGGGCGGTATTGGTATCACCCCTTTC  >  W3110S.gb/1887808‑1887939

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