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 F1 I1 R1	315	33.5	1889570	98.7%	1865005	80.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,239,692	T→C	Y272H (TAC→CAC)	dadX →	alanine racemase 2

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,239,692	0	T	C	100.0%	119.7 / NA	35	Y272H (TAC→CAC)	dadX	alanine racemase 2
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (17/18); total (17/18)

AGCGGGCGAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGTACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACGGTGGG  >  NC_000913/1239616‑1239768

aGCGGGCGAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGc                                                                          >  2:241853/1‑81 (MQ=255)

aGCGGGCGAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGc                                                                          >  1:241851/1‑81 (MQ=255)

       gAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGt                                                                   <  1:241800/81‑1 (MQ=255)

       gAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGt                                                                   >  1:241850/1‑81 (MQ=255)

       gAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGt                                                                   >  1:241869/1‑81 (MQ=255)

          cGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTAt                                                                <  2:241801/81‑1 (MQ=255)

           gtgtGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATc                                                               >  2:241855/1‑81 (MQ=255)

              tgGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCcg                                                             <  2:241802/80‑1 (MQ=255)

                  cTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCa                                                        >  2:241859/1‑81 (MQ=255)

                     cggcggTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCAcg                                                      <  1:241803/80‑1 (MQ=255)

                      ggcggTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCAcgcg                                                    >  2:241847/1‑81 (MQ=255)

                         ggTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGcc                                                  >  2:241872/1‑80 (MQ=255)

                          gTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTa                                                <  2:241804/81‑1 (MQ=255)

                             gCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTAcc                                              <  1:241806/80‑1 (MQ=255)

                             gCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTAcc                                              <  2:241807/80‑1 (MQ=255)

                             gCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCg                                             <  2:241805/81‑1 (MQ=255)

                                  aCTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTAcc                                        >  2:241862/1‑81 (MQ=255)

                                      cgcgcgATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCt                                     <  1:241808/80‑1 (MQ=255)

                                       gcgcgATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGt                                   >  1:241857/1‑81 (MQ=255)

                                        cgcgATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGtt                                  <  1:241809/81‑1 (MQ=255)

                                           gATGAACAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTa                               <  2:241810/81‑1 (MQ=255)

                                               aaCAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTgg                           <  2:241811/81‑1 (MQ=255)

                                               aaCAGCGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTg                            <  2:241812/80‑1 (MQ=255)

                                                    cGAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGc                      <  1:241813/81‑1 (MQ=255)

                                                     gAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCg                     >  2:241860/1‑81 (MQ=255)

                                                     gAATCGGCATTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCg                     <  1:241814/81‑1 (MQ=255)

                                                             aTTGTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCAcc             <  2:241815/81‑1 (MQ=255)

                                                                gTCGCCGCAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCAt           >  1:241871/1‑80 (MQ=255)

                                                                   gccgcAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACg       >  1:241879/1‑81 (MQ=255)

                                                                   gccgcAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACg       <  1:241816/81‑1 (MQ=255)

                                                                       cAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACGGTgg   <  2:241817/81‑1 (MQ=255)

                                                                       cAGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACGGTgg   >  2:241867/1‑81 (MQ=255)

                                                                        aGGGCACGTAGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGAAGGCGTGCGCACCATGACGGTggg  >  2:241866/1‑81 (MQ=255)

                                                                        aGGGCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACGGTggg  >  2:241865/1‑81 (MQ=255)

                                                                         gggCACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACGGTggg  >  2:241861/1‑80 (MQ=255)

AGCGGGCGAGCGTGTGGGCTACGGCGGTCGCTATACTGCGCGCGATGAACAGCGAATCGGCATTGTCGCCGCAGGGTACGCCGACGGTTATCCGCGCCACGCGCCTACCGGTACCCCTGTTTTAGTGGACGGCGTGCGCACCATGACGGTGGG  >  NC_000913/1239616‑1239768

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A