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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,421,860	T→C	L179S (TTA→TCA)	yhdY →	putative amino acid ABC transporter permease

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,421,860	0	T	C	100.0%	141.6 / NA	40	L179S (TTA→TCA)	yhdY	putative amino acid ABC transporter permease
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/19); total (21/19)

CCACTGATTGTCTGGTGGCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTTACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGTTCTGTTTATGTCTTCGGTCATGCTGCCGTTGTTTATG  >  NC_000913/3421724‑3421990

ccACTGATTGTCTGGTGGCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCAc                                                                                                                                  <  1:545610/139‑1 (MQ=255)

                ggCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTcgccg                                                                                                                  <  1:993311/139‑1 (MQ=255)

                ggCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTcgccg                                                                                                                  <  1:462003/139‑1 (MQ=255)

                    gATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTcc                                                                                                              >  2:329482/1‑139 (MQ=255)

                        tATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGt                                                                                                                       >  2:555741/1‑126 (MQ=255)

                        tATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGt                                                                                                                       <  1:555741/126‑1 (MQ=255)

                          tGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTcg                                                                                                                     >  1:718033/1‑126 (MQ=255)

                          tGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTcg                                                                                                                     <  2:718033/126‑1 (MQ=255)

                              ggTTTTTTTGCTCTTGAGCGGGTTGAAGCCCGGCAATGGGGCGGGCTGACGCGAACTTTTATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGa                                                                                                    <  2:359274/139‑1 (MQ=255)

                               gTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGAt                                                                                                   >  1:1108707/1‑139 (MQ=255)

                                cttttttGCTCTTGAGCGGGTTGAAACCCGGCAATGGGTCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGACGTTAGGTGGCCGCTCCCATATGCCGAtt                                                                                                  >  2:867796/2‑139 (MQ=255)

                                                             ggCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGa                                                                     >  1:1147476/1‑139 (MQ=255)

                                                                     ggcgggcTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGgc                                                             >  2:118489/1‑139 (MQ=255)

                                                                      gcgggcTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGgcg                                                            <  1:118489/139‑1 (MQ=255)

                                                                              aCGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTa                                                                         <  1:252106/118‑1 (MQ=255)

                                                                              aCGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTa                                                                         >  2:252106/1‑118 (MQ=255)

                                                                              aCGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGc                                                    >  2:305560/1‑139 (MQ=255)

                                                                                    aCTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGTGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCt                                                >  2:1007978/1‑137 (MQ=255)

                                                                                    aCTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGTGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCt                                                <  1:1007978/137‑1 (MQ=255)

                                                                                    aCTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGa                                              >  1:275848/1‑139 (MQ=255)

                                                                                       ttAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTa                                           <  1:305560/139‑1 (MQ=255)

                                                                                            tattGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGtt                                      <  2:1108707/139‑1 (MQ=255)

                                                                                            tatcGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGtt                                      <  1:867796/139‑1 (MQ=255)

                                                                                               tGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTcg                                                                                                                     >  1:436026/1‑57 (MQ=255)

                                                                                               tGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTcg                                                                                                                     <  2:436026/57‑1 (MQ=255)

                                                                                                   tCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGTTCTGTTTa                               >  2:267408/1‑139 (MQ=255)

                                                                                                      gTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATtgt                                                                                                >  1:608616/1‑71 (MQ=255)

                                                                                                      gTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATtgt                                                                                                <  2:608616/71‑1 (MQ=255)

                                                                                                         gggATTGCGTGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATtgtg                                                                                               >  1:903214/1‑69 (MQ=255)

                                                                                                         gggATTGCGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATtgtg                                                                                               <  2:903214/69‑1 (MQ=255)

                                                                                                                cGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGTTCTGttt                                >  2:1056549/1‑125 (MQ=255)

                                                                                                                cGGGGGCGCTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGTTCTGttt                                <  1:1056549/125‑1 (MQ=255)

                                                                                                                     gcgcTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCg                                                  >  2:972253/1‑102 (MQ=255)

                                                                                                                     gcgcTACCGTGGGGGATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCg                                                  <  1:972253/102‑1 (MQ=255)

                                                                                                                            tgTGGGGGATCTTGCTGGCGGTATGTATCCCATCGCATATGCCGTTTGTGCTTTTCTTATCGGTCCTTTTTGGCGTGTTCTTGCGCGGCGTGCCGCTGATTACCGTTCTGAATATGTCGTCGGTTATGCTGCCgttggt      <  2:30127/138‑3 (MQ=255)

                                                                                                                               gggggATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCg                                                  >  2:1037958/1‑92 (MQ=255)

                                                                                                                               gggggATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCg                                                  <  1:1037958/92‑1 (MQ=255)

                                                                                                                               gggggATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGTTCTGTTTATGTCTTCGGTCATGCTGCCGTTGTTTAt   >  2:391131/1‑139 (MQ=255)

                                                                                                                                ggggATCTCACTGGCGTTAGTTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATCCTTGCGCGGCGTGCCGCTGATTACCGTTCTGTTTATGTCTTCGGTCATGCTGCCGTTGTTTATg  >  2:576234/1‑139 (MQ=255)

                                                                                                                                   gATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCg                                                  >  2:303643/1‑88 (MQ=255)

                                                                                                                                   gATCTCACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCg                                                  <  1:303643/88‑1 (MQ=255)

                                                                                                                                     tctcACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCg                                                                                   <  2:1196805/53‑1 (MQ=255)

                                                                                                                                     tctcACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCg                                                                                   >  1:1196805/1‑53 (MQ=255)

                                                                                                                                     tctcACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGgcg                                                            >  2:1307434/1‑76 (MQ=255)

                                                                                                                                     tctcACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGgcg                                                            <  1:1307434/76‑1 (MQ=255)

                                                                                                                                     tctcACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCg                                        <  2:1150940/96‑1 (MQ=255)

                                                                                                                                     tctcACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCg                                        >  1:1150940/1‑96 (MQ=255)

CCACTGATTGTCTGGTGGCTGATGTATGGCGGTTTTTTTGCTCTTGAGCGGGTTGAAACCCGGCAATGGGGCGGGCTGACGCTAACTTTAATTATTGCATCAGTTGGGATTGCGGGGGCGCTACCGTGGGGGATCTTACTGGCGTTAGGTCGCCGCTCCCATATGCCGATTGTGCGTATCTTATCGGTCATTTTTATCGAATTCTGGCGCGGCGTGCCGCTGATTACCGTTCTGTTTATGTCTTCGGTCATGCTGCCGTTGTTTATG  >  NC_000913/3421724‑3421990

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A