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
A12 F28 I1 R1	123	51.0	1731148	99.3%	1719029	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,213,490	C→T	Y148Y (TAC→TAT)	rpoD →	RNA polymerase, sigma 70 (sigma D) factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,213,490	0	C	T	100.0%	157.4 / NA	45	Y148Y (TAC→TAT)	rpoD	RNA polymerase, sigma 70 (sigma D) factor
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (26/19); total (26/19)

CGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTACGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGA  >  NC_000913/3213353‑3213621

cGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGa                                                                                                                                   >  1:863765/1‑140 (MQ=255)

 gTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGAt                                                                                                                                  >  1:109213/1‑140 (MQ=255)

 gTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGAt                                                                                                                                  <  2:178722/140‑1 (MQ=255)

   gAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCg                                                                                                                                >  1:316806/1‑140 (MQ=255)

   gAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCg                                                                                                                                >  1:370127/1‑140 (MQ=255)

         ggCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGa                                                                                                                          >  1:568278/1‑140 (MQ=255)

           cACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACAAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAg                                                                                                                        <  1:402641/140‑1 (MQ=255)

                        ttGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGcgcg                                                                                                           <  2:318893/140‑1 (MQ=255)

                        ttGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGcgcg                                                                                                           <  2:568278/140‑1 (MQ=255)

                        ttGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGcgcg                                                                                                           >  1:293702/1‑140 (MQ=255)

                         tGACCCGCGAAGGCGATATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGt                                                                                                          <  2:774721/140‑1 (MQ=255)

                           aCCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCt                                                                                                        >  2:618353/1‑140 (MQ=255)

                                  aaGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGAt                                                                                                 >  1:766343/1‑140 (MQ=255)

                                   aGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATc                                                                                                <  2:316806/140‑1 (MQ=255)

                                   aGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATc                                                                                                <  2:370127/140‑1 (MQ=255)

                                           ttGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCAcc                                                                                        >  1:299283/1‑140 (MQ=255)

                                              aCATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGc                                                                                     >  2:123303/1‑140 (MQ=255)

                                                 tCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCttt                                                                                  >  1:610052/1‑140 (MQ=255)

                                                  cGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTttg                                                                                 <  1:123303/140‑1 (MQ=255)

                                                          gTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCg                                                                         <  1:643776/140‑1 (MQ=255)

                                                             ttGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAAc                                                                      >  2:610127/1‑140 (MQ=255)

                                                             ttGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAAc                                                                      <  1:618353/140‑1 (MQ=255)

                                                             ttGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAAc                                                                      >  1:3658/1‑140 (MQ=255)

                                                              tGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACg                                                                     <  2:610052/140‑1 (MQ=255)

                                                                  gACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTATTGACCCGAACGCaga                                                                 >  2:776121/1‑140 (MQ=255)

                                                                   aCGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaa                                                                >  2:51512/1‑140 (MQ=255)

                                                                   aCGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaa                                                                >  2:578419/1‑140 (MQ=255)

                                                                   aCGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaa                                                                <  2:3658/140‑1 (MQ=255)

                                                                       gATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCagaagaag                                                            >  2:153924/1‑140 (MQ=255)

                                                                         tCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGAt                                                          <  1:153924/140‑1 (MQ=255)

                                                                            aCCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTg                                                       >  2:526928/1‑140 (MQ=255)

                                                                                 gTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCAcc                                                  >  1:733227/1‑140 (MQ=255)

                                                                                    cAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTAc                                               <  1:776121/140‑1 (MQ=255)

                                                                                             gTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGTTTTGTTGCCCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCa                                      <  1:707415/140‑1 (MQ=255)

                                                                                                       atCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCt                            >  2:554832/1‑140 (MQ=255)

                                                                                                        tCCGGAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTg                           >  2:584282/1‑140 (MQ=255)

                                                                                                            gAAGCGATCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCCCCGGTTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCt                       <  2:324868/140‑1 (MQ=255)

                                                                                                                  aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTc                             >  1:751688/1‑128 (MQ=255)

                                                                                                                  aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTc                             <  2:751688/128‑1 (MQ=255)

                                                                                                                  aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCa                 >  2:355177/1‑140 (MQ=255)

                                                                                                                  aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCa                 >  1:452971/1‑140 (MQ=255)

                                                                                                                  aTCACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCa                 >  1:623017/1‑140 (MQ=255)

                                                                                                                    cACCTATCTGCTGGAACAGTATGATGGTGTTGAAGCAGAAGAGGCGCGTCTGCCCGATCTGACCCCCGGCTTTGTTGCCCCGAACGCAAAAGAAGATCTGGCCCCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAgg               <  2:863765/140‑1 (MQ=255)

                                                                                                                    cACCTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCCCCGGCTTTGTTGCCCCGAACGCAGAAGAAGATCTGGCCCCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAgg               <  2:293702/140‑1 (MQ=255)

                                                                                                                     cccTATCTGCTGGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGACCCCCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGa              <  2:408463/139‑1 (MQ=255)

                                                                                                                              ctgGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGCCCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTAACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGa     <  2:766343/140‑1 (MQ=255)

                                                                                                                               tgGAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGAc    >  1:695564/1‑140 (MQ=255)

                                                                                                                                 gAACAGTATGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGa  <  1:554832/140‑1 (MQ=255)

CGTGAAATGGGCACCGTTGAACTGTTGACCCGCGAAGGCGAAATTGACATCGCTAAGCGTATTGAAGACGGGATCAACCAGGTTCAATGCTCCGTTGCTGAATATCCGGAAGCGATCACCTATCTGCTGGAACAGTACGATCGTGTTGAAGCAGAAGAAGCGCGTCTGTCCGATCTGATCACCGGCTTTGTTGACCCGAACGCAGAAGAAGATCTGGCACCTACCGCCACTCACGTCGGTTCTGAGCTTTCCCAGGAAGATCTGGACGA  >  NC_000913/3213353‑3213621

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A