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
A6 F1 I1 R1	67	31.4	1402038	96.1%	1347358	109.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,182,907	T→C	Y555H (TAC→CAC)	rpoB →	RNA polymerase, beta subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,182,907	0	T	C	100.0%	116.9 / NA	31	Y555H (TAC→CAC)	rpoB	RNA polymerase, beta subunit
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/17); total (14/17)

CTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTACGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGAC  >  NC_000913/4182775‑4183032

cTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTc                                                                                                                         >  2:664653/1‑139 (MQ=255)

                   aGAACAACCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGCACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAAc                                                                                                      <  2:486585/139‑1 (MQ=255)

                     aacaacCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAAccc                                                                                                    >  2:601647/1‑139 (MQ=255)

                         acCCGCTGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGa                                                                                                <  2:224440/139‑1 (MQ=255)

                               tGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGa                                                                                                         <  1:441061/124‑1 (MQ=255)

                               tGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGa                                                                                                         >  2:441061/1‑124 (MQ=255)

                               tGTCTGAGATTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTcc                                                                                          >  1:133439/1‑139 (MQ=255)

                                      gaTTGCGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATc                                                                                   <  2:216818/139‑1 (MQ=255)

                                               caAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGATGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATc                                                                          <  1:428547/139‑1 (MQ=255)

                                                      cgtATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAActctc                                                                   >  2:495846/1‑139 (MQ=255)

                                                          tctcCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTc                                                               <  2:201316/139‑1 (MQ=255)

                                                            tcCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCg                                                             >  1:283589/1‑139 (MQ=255)

                                                                    cGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGca                                                     <  1:611507/139‑1 (MQ=255)

                                                                     ggCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCg                                                                                  <  1:316728/109‑1 (MQ=255)

                                                                     ggCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCg                                                                                  >  2:316728/1‑109 (MQ=255)

                                                                     ggCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGcac                                                    >  2:321709/1‑139 (MQ=255)

                                                                      gCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACAt                                                                                    <  1:507348/106‑1 (MQ=255)

                                                                      gCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACAt                                                                                    >  2:507348/1‑106 (MQ=255)

                                                                                 cTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCt                                                                              >  2:651236/1‑101 (MQ=255)

                                                                                 cTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCt                                                                              <  1:651236/101‑1 (MQ=255)

                                                                                     cccGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAActct                                                                    <  1:648962/107‑1 (MQ=255)

                                                                                     cccGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAActct                                                                    >  2:648962/1‑107 (MQ=255)

                                                                                        gTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCtt                                 <  1:321709/139‑1 (MQ=255)

                                                                                         tGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTAt                                                                                                                   <  1:606164/56‑1 (MQ=255)

                                                                                         tGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTAt                                                                                                                   >  2:606164/1‑56 (MQ=255)

                                                                                             cGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTg                            <  1:664653/139‑1 (MQ=255)

                                                                                                  aGGCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACt                       <  2:133439/139‑1 (MQ=255)

                                                                                                   ggCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGc                                   <  2:33770/126‑1 (MQ=255)

                                                                                                   ggCTTCGAAGTTCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGc                                   >  1:33770/1‑126 (MQ=255)

                                                                                                              tCGAGACGTACACCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCG‑ACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAg          >  2:486969/1‑139 (MQ=255)

                                                                                                                       acacCCGACTCACCACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGAc  <  1:601647/139‑1 (MQ=255)

CTGTCTCAGTTTATGGACCAGAACAACCCGCTGTCTGAGATTACGCACAAACGTCGTATCTCCGCACTCGGCCCAGGCGGTCTGACCCGTGAACGTGCAGGCTTCGAAGTTCGAGACGTACACCCGACTCACTACGGTCGCGTATGTCCAATCGAAACCCCTGAAGGTCCGAACATCGGTCTGATCAACTCTCTGTCCGTGTACGCACAGACTAACGAATACGGCTTCCTTGAGACTCCGTATCGTAAAGTGACCGAC  >  NC_000913/4182775‑4183032

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