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
A9 F1 I2 R1	760	52.7	2744488	90.2%	2475528	105.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,277,867	C→T	V267I (GTC→ATC)	agaR ←	transcriptional repressor of the aga regulon

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,277,867	0	C	T	100.0%	152.9 / NA	48	V267I (GTC→ATC)	agaR	transcriptional repressor of the aga regulon
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (28/20); total (28/20)

ATGTTAAAAAGAGGACATCCTCCTGCCGACTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGACCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACTGGAACGATTGAACTTACTGG  >  NC_000913/3277733‑3277998

aTGTTAAAAAGAGGACATCCTCCTGCCGACTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGa                                                                                                                                 <  1:1355358/139‑1 (MQ=255)

                  cctcctGCCGACTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGcc                                                                                                               >  1:1186306/1‑139 (MQ=255)

                      ctGCCGACTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTc                                                                                                           >  2:991823/1‑139 (MQ=255)

                            aCTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGa                                                                                                                                 >  1:1032360/1‑111 (MQ=255)

                            aCTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGa                                                                                                                                 <  2:1032360/111‑1 (MQ=255)

                            aCTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTc                                                                                                           <  1:140681/133‑1 (MQ=255)

                            aCTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTc                                                                                                           >  2:140681/1‑133 (MQ=255)

                            aCTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTc                                                                                                     >  2:916298/1‑139 (MQ=255)

                              tGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATAGATGGTGTTCGCAATGCCCGCCGAACACATTCGTGTTGACCAGCGGGCATGCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCt                                                                                                   >  2:868978/1‑139 (MQ=255)

                                                   aCAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATg                                                                              <  2:1186306/139‑1 (MQ=255)

                                                     agaagaAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGcc                                                                            <  1:1263662/139‑1 (MQ=255)

                                                        agaaACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTtc                                                                         >  1:501929/1‑139 (MQ=255)

                                                            aCCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTtcatca                                                                     >  2:221340/1‑139 (MQ=255)

                                                               cATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTtcat                                                                       >  2:1030383/1‑134 (MQ=255)

                                                               cATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTtcat                                                                       <  1:1030383/134‑1 (MQ=255)

                                                                 ttGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCt                                                                                           <  2:101479/112‑1 (MQ=255)

                                                                 ttGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCt                                                                                           >  1:101479/1‑112 (MQ=255)

                                                                 ttGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATGCGCAGGa                                                                                 <  1:896617/122‑1 (MQ=255)

                                                                 ttGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGa                                                                                 >  2:896617/1‑122 (MQ=255)

                                                                 ttGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAAt                                                                >  2:718214/1‑139 (MQ=255)

                                                                 ttGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAAt                                                                >  2:351215/1‑139 (MQ=255)

                                                                    aTGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGAt                                                             >  1:350224/1‑139 (MQ=255)

                                                                        tgtTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAAccc                                                                                                                    >  2:980415/1‑80 (MQ=255)

                                                                        tgtTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATg                                                                              <  1:392236/118‑1 (MQ=255)

                                                                        tgtTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATg                                                                              >  2:392236/1‑118 (MQ=255)

                                                                        tgtCCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAAccc                                                                                                                    <  1:980415/80‑1 (MQ=255)

                                                                             acaATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGAt                                                    <  1:991823/139‑1 (MQ=255)

                                                                                  gCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATg                                                         <  1:941957/129‑1 (MQ=255)

                                                                                  gCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATg                                                         >  2:941957/1‑129 (MQ=255)

                                                                                  gCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGtt                                               >  2:1357634/1‑139 (MQ=255)

                                                                                   cccGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTtcat                                                                       >  1:23153/1‑114 (MQ=255)

                                                                                   cccGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTtcat                                                                       <  2:23153/114‑1 (MQ=255)

                                                                                    ccgccgAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACt                                                                                                                           >  2:667991/1‑61 (MQ=255)

                                                                                    ccgccgAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACt                                                                                                                           <  1:667991/61‑1 (MQ=255)

                                                                                    ccgccgAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGa                                             <  1:221340/139‑1 (MQ=255)

                                                                                           aCGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCaa                                      <  1:942665/139‑1 (MQ=255)

                                                                                                ttCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATc                                 >  2:1317158/1‑139 (MQ=255)

                                                                                                      ttGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAg                                                                                                       >  1:983810/1‑63 (MQ=255)

                                                                                                      ttGACCAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAg                                                                                                       <  2:983810/63‑1 (MQ=255)

                                                                                                           cAGCGGGCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACt                      >  2:568992/1‑139 (MQ=255)

                                                                                                               gggCATCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACTGGaa                  <  1:1357634/139‑1 (MQ=255)

                                                                                                                   aTCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACTGGAACGAt              >  1:453494/1‑139 (MQ=255)

                                                                                                                   aTCCTTTCTCACTCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACTGGAACGAt              >  2:1332251/1‑139 (MQ=255)

                                                                                                                               tCCCCGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACTGGAACGATTGAACTTACTgg  >  2:570640/1‑139 (MQ=255)

                                                                                                                                 cccGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGaa                                                                                <  1:982385/59‑1 (MQ=255)

                                                                                                                                 cccGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGaa                                                                                >  2:982385/1‑59 (MQ=255)

                                                                                                                                   cGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCa                                                           <  2:283505/78‑1 (MQ=255)

                                                                                                                                   cGATCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCa                                                           >  1:283505/1‑78 (MQ=255)

ATGTTAAAAAGAGGACATCCTCCTGCCGACTGGGAAACCCTCACCCGAGAAACAGAAGAAACCCATTGATGGTGTTCACAATGCCCGCCGAACGCATTCGTGTTGACCAGCGGGCATCCTTTCTCACTCCCCGACCAGAATCACTTCAACCCCAGCCTTTCGCAGTCCTTCCAGGCTATCCGCAGGAATGCCTTCATCAACAATGATCATGTCGATACGTTGAGTATCAATGATCTTATGTAAACTGGAACGATTGAACTTACTGG  >  NC_000913/3277733‑3277998

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A