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 F8 I0 R1	311	50.1	4085234	95.9%	3917739	60.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	2,927,326	G→A	17.0%	V148M (GTG→ATG)	sdaC →	predicted serine transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	2,927,326	0	G	A	17.0%	127.4 / 18.1	53	V148M (GTG→ATG)	sdaC	predicted serine transporter
Reads supporting (aligned to +/- strand): ref base G (23/21); new base A (5/4); total (28/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01

GAAAGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTGGTATTC  >  W3110S.gb/2927257‑2927394

gAAAGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGCTCGt                                                                     >  1:943103/1‑71 (MQ=255)

gAAAGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGt                                                                     >  1:2315048/1‑71 (MQ=255)

gAAAGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGt                                                                     >  1:2926944/1‑71 (MQ=255)

gAAAGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGt                                                                     >  1:2922241/1‑71 (MQ=255)

   aGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTggg                                                                  >  1:3897512/1‑71 (MQ=255)

     cTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTa                                                                >  1:4019158/1‑71 (MQ=255)

        cATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTatga                                                             >  1:2556367/1‑71 (MQ=255)

          tGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTatgatg                                                           <  1:1951219/71‑1 (MQ=255)

            tctcACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGAc                                                         >  1:486209/1‑71 (MQ=255)

              tcACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGAcc                                                        >  1:3235387/1‑70 (MQ=255)

                 ccAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCg                                                    <  1:2036132/71‑1 (MQ=255)

                 ccAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCg                                                    <  1:1991474/71‑1 (MQ=255)

                 ccAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCg                                                    <  1:3693715/71‑1 (MQ=255)

                 ccAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCg                                                    <  1:2801924/71‑1 (MQ=255)

                 ccAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCg                                                    <  1:3358171/71‑1 (MQ=255)

                  cAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGt                                                   >  1:1760012/1‑71 (MQ=255)

                  cAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGt                                                   >  1:3472021/1‑71 (MQ=255)

                   aGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGtt                                                  >  1:1043089/1‑71 (MQ=255)

                   aGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGtt                                                  <  1:1450488/71‑1 (MQ=255)

                   aGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGtt                                                  <  1:735116/71‑1 (MQ=255)

                          tATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTggg                                                                  <  1:1935262/48‑1 (MQ=255)

                          tATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTggg                                                                  <  1:3499934/48‑1 (MQ=255)

                           aTGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCg                                           >  1:3163694/1‑70 (MQ=255)

                            tGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTat                                                               <  1:2256472/49‑1 (MQ=255)

                             gACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCATGGGTATGATGACCATCGTTCGCTTCGGt                                         >  1:2348652/1‑70 (MQ=255)

                             gACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCATGGGTATGATGACCATCGTTCGCTTCGGt                                         >  1:527748/1‑70 (MQ=255)

                              aCGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCAt                                                      >  1:3720772/1‑56 (MQ=255)

                              aCGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCgg                                          >  1:1317274/1‑68 (MQ=255)

                                gCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCATGGGTATGATGACCATCGTTCGCTTCGGTGAg                                      <  1:291626/70‑1 (MQ=255)

                                      gccgcGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAgatga                               >  1:3704759/1‑71 (MQ=255)

                                      gccgcGTGCGATTCTGTCGCTGATCCTGATCATGGGTa                                                                >  1:695661/1‑38 (MQ=255)

                                      gccgcGTGCGATTCTGTCGCTGATCCTGATCATGGGTa                                                                >  1:806092/1‑38 (MQ=255)

                                          cgTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGtt                                                  <  1:1115903/48‑1 (MQ=255)

                                           gTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGtt                          <  1:1772338/71‑1 (MQ=255)

                                           gTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGtt                          <  1:63846/71‑1 (MQ=255)

                                              cGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTa                         >  1:3171465/1‑69 (MQ=255)

                                                aTTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGc                     <  1:3621607/71‑1 (MQ=255)

                                                aTTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGc                     <  1:1809156/71‑1 (MQ=255)

                                                aTTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGc                     <  1:460346/71‑1 (MQ=255)

                                                   cTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGa                   >  1:1133513/1‑70 (MQ=255)

                                                      tCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAg               <  1:3785991/71‑1 (MQ=255)

                                                      tCGCTGATCCTGATCATGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATggg               >  1:258092/1‑69 (MQ=255)

                                                      tCGCTGATCCTGATCATGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAg               <  1:1347876/71‑1 (MQ=255)

                                                          tgatcctgatcGTGGGTATGATGACCATCGTTCGCTTCgg                                          >  1:1609940/1‑40 (MQ=255)

                                                             tcctgatcGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGAt                  <  1:3094019/61‑1 (MQ=255)

                                                             tcctgatcGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGAt                  <  1:1130956/61‑1 (MQ=255)

                                                               ctgatcGTGGGTATTATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTgg       >  1:2241553/1‑70 (MQ=255)

                                                               ctgatcGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTgg       >  1:176416/1‑70 (MQ=255)

                                                               ctgatcGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTgg       <  1:2003293/70‑1 (MQ=255)

                                                               ctgatcGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTgg       >  1:959743/1‑70 (MQ=255)

                                                               ctgatcATGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTgg       <  1:186146/70‑1 (MQ=255)

                                                                  atcATGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTGTGGTAt    <  1:521935/70‑1 (MQ=255)

                                                                   tcGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTGGTATTc  >  1:2942943/1‑71 (MQ=255)

GAAAGCTTCATGTCTCACCAGCTGGGTATGACGCCACCGCCGCGTGCGATTCTGTCGCTGATCCTGATCGTGGGTATGATGACCATCGTTCGCTTCGGTGAGCAGATGATCGTTAAAGCGATGAGTATTCTGGTATTC  >  W3110S.gb/2927257‑2927394

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