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 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,907,945	T→C	N141S (AAC→AGC)	pstB ←	phosphate ABC transporter ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,907,945	0	T	C	100.0%	133.6 / NA	36	N141S (AAC→AGC)	pstB	phosphate ABC transporter ATPase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/17); total (19/17)

CGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGTTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGAACACCATGCCCAC  >  NC_000913/3907799‑3908090

cGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTcc                                                                                                                                                >  2:425760/1‑150 (MQ=255)

    agagATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAAt                                                                                                                                           >  1:538439/1‑151 (MQ=255)

     gagaTAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATg                                                                                                                                          <  1:523912/151‑1 (MQ=255)

                   cgcCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAAt                                                                                                                            <  1:283004/151‑1 (MQ=255)

                       gAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGccc                                                                                                                        >  1:384499/1‑151 (MQ=255)

                        aaCACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGccc                                                                                                                        >  1:71132/1‑150 (MQ=255)

                           acGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTg                                                                                                                    >  1:500615/1‑151 (MQ=255)

                                       gcagcagcaCTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTc                                                                                                        >  1:430643/1‑151 (MQ=255)

                                        cagcagcaCTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTcc                                                                                                       <  1:290816/151‑1 (MQ=255)

                                          gcagcaCTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCa                                                                                                      <  2:525633/150‑1 (MQ=255)

                                                  tCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCa                                                                                              <  1:598437/150‑1 (MQ=255)

                                                      ggCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACggg                                                                                          >  2:438631/1‑150 (MQ=255)

                                                      ggCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACggg                                                                                          >  2:442951/1‑150 (MQ=255)

                                                        cGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACggg                                                                                          >  2:126783/1‑148 (MQ=255)

                                                         gAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGgag                                                                                        >  1:55693/1‑149 (MQ=255)

                                                                       cgcgCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGAc                                                                        <  1:231517/151‑1 (MQ=255)

                                                                           cAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAAc                                                                    >  2:198323/1‑151 (MQ=255)

                                                                              tACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGcc                                                                 >  2:587211/1‑151 (MQ=255)

                                                                                  caGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCaaa                                                              >  1:176311/1‑150 (MQ=255)

                                                                                  caGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCCTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCaaa                                                              >  1:591891/1‑150 (MQ=255)

                                                                                                gACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCg                                                 <  1:203206/149‑1 (MQ=255)

                                                                                                gACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGt                                                <  2:167596/150‑1 (MQ=255)

                                                                                                   caccaGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGt                                                >  1:593548/1‑147 (MQ=255)

                                                                                                        gagagagagTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGAc                                        >  2:589223/1‑150 (MQ=255)

                                                                                                        gagagagagTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACa                                       <  2:543560/151‑1 (MQ=255)

                                                                                                         agagagagTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACAt                                      <  2:350956/151‑1 (MQ=255)

                                                                                                             agagTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCgg                                   >  2:330887/1‑150 (MQ=255)

                                                                                                              gagTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGaa                                 <  2:497384/151‑1 (MQ=255)

                                                                                                                gTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAAc                               <  1:442946/151‑1 (MQ=255)

                                                                                                                gTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAAc                               <  1:438626/151‑1 (MQ=255)

                                                                                                                      gCTCTGGTGCAATTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTc                         <  1:198322/151‑1 (MQ=255)

                                                                                                                                 aTTTATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGaa              <  2:625515/151‑1 (MQ=255)

                                                                                                                                    tATCTTTGGTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGAacac           >  2:480254/1‑151 (MQ=255)

                                                                                                                                            gTTTCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGAACACCATGCCCa   <  1:83549/151‑1 (MQ=255)

                                                                                                                                             tttCGCTCCACAATGCGTCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGAACACCATGCCCa   <  1:465409/150‑1 (MQ=255)

                                                                                                                                             tttCGCTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGAACACCATGCCCAc  >  1:40560/1‑151 (MQ=255)

CGGTAGAGATAGGGTCGAGCGCCGAACACGGTTCGTCGAGCAGCAGCACTTCCGGGCGAATGGCGATACCACGCGCAATACACAGACGCTGTTGCTGACCACCAGAGAGAGAGTAACCGCTCTGGTGCAATTTATCTTTGGTTTCGTTCCACAATGCGGCTTTGGTCAATGCCCACTGCACGCGCTCGTCCATGTCGGCACGGGAGAGCTTCTCAAACAGACGAACGCCAAAAGCGATGTTGTCGTAGATGGACATCGGAAACGGCGTCGGTTTCTGGAACACCATGCCCAC  >  NC_000913/3907799‑3908090

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A