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
A2 F1 I1 R1	81	28.9	1316934	95.8%	1261622	113.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,266,510	C→T	A243A (GCC→GCT)	alr →	alanine racemase, biosynthetic, PLP‑binding

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,266,510	0	C	T	100.0%	104.9 / NA	31	A243A (GCC→GCT)	alr	alanine racemase, biosynthetic, PLP‑binding
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (18/13); total (18/13)

TGGCCACAGTCGCATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCCGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGCGCCGCGCCGTCCGGTACGCCA  >  NC_000913/4266379‑4266642

tgGCCACAGTCGCATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCtgtgcgtg                                                                                                                               >  1:535797/1‑139 (MQ=255)

  gCCACAGTCGCATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAg                                                                                                                             >  2:35625/1‑139 (MQ=255)

  gCCACAGTCGCATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAg                                                                                                                             >  2:242573/1‑139 (MQ=255)

    cacaGTCGCATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCa                                                                                                                           <  1:35625/139‑1 (MQ=255)

            cATTTTGACTGGGTTCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCAATTTTGGCTGTCAGCCAGTGATGTCAGTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCg                                                                                                                   >  2:400139/1‑139 (MQ=255)

            cATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCg                                                                                                                   >  1:647735/1‑139 (MQ=255)

                    cTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCt                                                                                                           <  1:370919/139‑1 (MQ=255)

                           cgcCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGtt                                                                                                    <  1:361208/139‑1 (MQ=255)

                                 ggCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTAtggtg                                                                                              >  1:606569/1‑139 (MQ=255)

                                                ggCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCg                                                                               >  1:209680/1‑139 (MQ=255)

                                                   gTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAAc                                                                            >  1:630412/1‑139 (MQ=255)

                                                                    tCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGc                                                           >  2:398914/1‑139 (MQ=255)

                                                                             cGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTcgcg                                                  <  2:535797/139‑1 (MQ=255)

                                                                               gTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCa                                                                                                                           >  2:416068/1‑64 (MQ=255)

                                                                               gTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCa                                                                                                                           <  1:416068/64‑1 (MQ=255)

                                                                               gTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGAt                                                >  1:185990/1‑139 (MQ=255)

                                                                                  ccGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATAc                                                                     <  1:38553/115‑1 (MQ=255)

                                                                                  ccGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATAc                                                                     >  2:38553/1‑115 (MQ=255)

                                                                                          ggCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCg                                     <  1:400139/139‑1 (MQ=255)

                                                                                                      gTGATGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCcgc                         <  2:185990/139‑1 (MQ=255)

                                                                                                         aTGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTAtggtg                                                                                              >  1:570221/1‑67 (MQ=255)

                                                                                                         aTGTCACTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTAtggtg                                                                                              <  2:570221/67‑1 (MQ=255)

                                                                                                               cTAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGcgcgccgcgc                <  2:262361/139‑1 (MQ=255)

                                                                                                                tAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCg                                                                               <  1:651005/75‑1 (MQ=255)

                                                                                                                tAACCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCg                                                                               >  2:651005/1‑75 (MQ=255)

                                                                                                                 aaCCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGcgccgcgccg              >  1:320123/1‑139 (MQ=255)

                                                                                                                 aaCCTCCAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGcgccgcgccg              >  1:161062/1‑139 (MQ=255)

                                                                                                                       cAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCt                                           <  2:319547/104‑1 (MQ=255)

                                                                                                                       cAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCt                                           >  1:319547/1‑104 (MQ=255)

                                                                                                                       cAGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGCGCCGCGCCGTCCGGt        >  2:559185/1‑139 (MQ=255)

                                                                                                                        aGCCTGATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGCGCCGCGCCGTCCGGTa       >  1:202416/1‑139 (MQ=255)

                                                                                                                             gATTGCTGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGCGCCGCGCCGTCCGGTACGCCa  <  1:398914/139‑1 (MQ=255)

TGGCCACAGTCGCATTTTGACTGGGTGCGCCCGGGCATCATTCTTTATGGCGTCTCGCCGCTGGAAGATCGCTCCACCGGTGCCGATTTTGGCTGTCAGCCAGTGATGTCACTAACCTCCAGCCTGATTGCCGTGCGTGAGCATAAAGCCGGAGAGCCTGTTGGTTATGGTGGAACCTGGGTAAGCGAACGTGATACCCGTCTTGGCGTAGTCGCGATGGGCTATGGCGATGGTTATCCGCGCGCCGCGCCGTCCGGTACGCCA  >  NC_000913/4266379‑4266642

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A