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
A3 F1 I2 R1	777	59.2	2955938	92.5%	2734242	106.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,770,090	T→C	R339R (CGT→CGC)	ydiK →	UPF0118 family inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,770,090	0	T	C	100.0%	137.6 / NA	39	R339R (CGT→CGC)	ydiK	UPF0118 family inner membrane protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/19); total (20/19)

TCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGTCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGATTGTTAA  >  NC_000913/1769957‑1770221

tCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGtt                                                                                                                                >  1:1358832/1‑139 (MQ=255)

tCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGtt                                                                                                                                >  2:1003402/1‑139 (MQ=255)

      cAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCTGTTTCCTGGCGCCTGTTTGCcgc                                                                                                                          <  2:1253857/139‑1 (MQ=255)

       aaTGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCcgcg                                                                                                                         <  1:573389/139‑1 (MQ=255)

                   cATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaagaa                                                                                                             >  1:1138373/1‑139 (MQ=255)

                   cATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaagaa                                                                                                             >  1:1282404/1‑139 (MQ=255)

                   cATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaagaa                                                                                                             >  2:1445913/1‑139 (MQ=255)

                      gggTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTc                                                                                                          <  1:1003402/139‑1 (MQ=255)

                           ccGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaag                                                                                                               <  2:373007/129‑1 (MQ=255)

                           ccGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGgaag                                                                                                               >  1:373007/1‑129 (MQ=255)

                            cGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCccgccg                                                                                                    <  2:1117890/139‑1 (MQ=255)

                                      cTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCgtgggt                                                                                                                    <  2:680091/113‑1 (MQ=255)

                                      cTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCgtgggt                                                                                                                    >  1:680091/1‑113 (MQ=255)

                                        gATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCaa                                                                                        >  1:1113081/1‑139 (MQ=255)

                                            cTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCgg                                                                                    <  1:140875/139‑1 (MQ=255)

                                               aTTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCcg                                                                                                                           >  1:1424110/1‑97 (MQ=255)

                                               aTTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCcg                                                                                                                           <  2:1424110/97‑1 (MQ=255)

                                                     tctGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATtc                                                                           >  2:643920/1‑139 (MQ=255)

                                                                       ttGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGaaa                                                         >  2:593784/1‑139 (MQ=255)

                                                                             gCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCgaga                                                   <  2:1113081/139‑1 (MQ=255)

                                                                               tttCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGaaa                                                 <  1:593784/139‑1 (MQ=255)

                                                                               tttCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGaaa                                                 <  2:1282404/139‑1 (MQ=255)

                                                                                         atCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGaa                                            <  1:23247/134‑1 (MQ=255)

                                                                                         atCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGaa                                            >  2:23247/1‑134 (MQ=255)

                                                                                         atCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGt                                       <  2:1138373/139‑1 (MQ=255)

                                                                                           cGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAAt                                                                             >  1:785284/1‑99 (MQ=255)

                                                                                           cGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAAt                                                                             <  2:785284/99‑1 (MQ=255)

                                                                                                tGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTtct                                >  1:217638/1‑139 (MQ=255)

                                                                                                 gTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGAcc                                                                                          >  2:1312067/1‑80 (MQ=255)

                                                                                                 gTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGAcc                                                                                          <  1:1312067/80‑1 (MQ=255)

                                                                                                     aTTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCtcatca                           >  2:948262/1‑139 (MQ=255)

                                                                                                                 cTGTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTgcc               >  2:1477522/1‑139 (MQ=255)

                                                                                                                   gTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTgg                                                              <  2:1305725/90‑1 (MQ=255)

                                                                                                                   gTTAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTgg                                                              >  1:1305725/1‑90 (MQ=255)

                                                                                                                    ttAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCaa                                                                                        <  1:434581/63‑1 (MQ=255)

                                                                                                                    ttAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCaa                                                                                        >  2:434581/1‑63 (MQ=255)

                                                                                                                     tAGCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCt           <  2:1358832/139‑1 (MQ=255)

                                                                                                                       gCCGTTTCCTGGCGCCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGa         <  1:1445913/139‑1 (MQ=255)

                                                                                                                              ccTGGCGCCTGTTTGCCGAGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGATTGTTaa  >  1:815899/1‑139 (MQ=255)

TCCGCCCAATGTTAATTCGCATGGGTGCCGATTTACCGCTGATCCTGATTCTCTCTGGCGTTATTGGTGGTTTGATTGCTTTCGGGATGATCGGTCTGTTTATTGGTCCGGTTCTGTTAGCCGTTTCCTGGCGTCTGTTTGCCGCGTGGGTGGAAGAAGTCCCGCCGCCGACGGACCAACCGGAAGAAATTCTCGAAGAACTTGGCGAAATCGAGAAACCGAATAAGTAATTTCTCATCAGGCGGCTCTGCCGCCTGATTGTTAA  >  NC_000913/1769957‑1770221

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A