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
A2 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,609,458	T→C	R324R (CGT→CGC)	hyfG →	hydrogenase 4, subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,609,458	0	T	C	94.3%	114.8 / ‑0.6	35	R324R (CGT→CGC)	hyfG	hydrogenase 4, subunit
Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (12/21); total (13/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01

TGCTGGAAGTCGAACGGCTACACAGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGTAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGCCGAATATGGA  >  NC_000913/2609316‑2609601

tgctgGAAGTCGAACGGCTACACAGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCt                                                                                                                                          >  1:158821/1‑150 (MQ=255)

   tgGAAGTCGAACGGCTACACAGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACgg                                                                                                                                      >  1:567535/1‑151 (MQ=255)

              cGGCTACACAGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGa                                                                                                                           <  1:177928/151‑1 (MQ=255)

                   acacAGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATtg                                                                                                                        <  1:198310/149‑1 (MQ=255)

                    cacaGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATtggt                                                                                                                      <  2:103481/150‑1 (MQ=255)

                     acaGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATtggtgg                                                                                                                    >  1:266533/1‑151 (MQ=255)

                       aGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGgtggtg                                                                                                                  <  2:439173/151‑1 (MQ=255)

                                cTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGTAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCcgcg                                                                                                         >  2:190791/1‑151 (MQ=255)

                                   aaCCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGata                                                                                                      <  1:273835/151‑1 (MQ=255)

                                   aaCCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTAATTGGTGGTGTTCGCCGCGata                                                                                                      <  2:196666/151‑1 (MQ=255)

                                         ggCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATtctc                                                                                                 <  2:403775/150‑1 (MQ=255)

                                         ggCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATtctc                                                                                                 >  1:360901/1‑150 (MQ=255)

                                          gCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCaa                                                                                               <  2:267564/151‑1 (MQ=255)

                                             tctcCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGTGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCaa                                                                                               >  1:531399/1‑148 (MQ=255)

                                                ccTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCa                                                                                         <  1:541345/151‑1 (MQ=255)

                                                     cATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTc                                                                                    <  1:226289/151‑1 (MQ=255)

                                                      aTTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCt                                                                                   >  1:231554/1‑151 (MQ=255)

                                                      aTTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCt                                                                                   <  1:192080/151‑1 (MQ=255)

                                                        ttCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGc                                                                                 >  2:311925/1‑151 (MQ=255)

                                                           gTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCaa                                                                               >  2:490513/1‑150 (MQ=255)

                                                             tGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAAc                                                                             <  2:228369/150‑1 (MQ=255)

                                                              ggTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACg                                                                            <  2:561343/150‑1 (MQ=255)

                                                               gTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCt                                                                          <  1:467796/151‑1 (MQ=255)

                                                                          ggCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTgc                                                               <  1:445628/151‑1 (MQ=255)

                                                                           gCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTgcg                                                              >  2:624051/1‑151 (MQ=255)

                                                                              ttATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGTAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGcgcg                                                            <  1:190796/150‑1 (MQ=255)

                                                                                           ccGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGAc                                              <  1:213327/151‑1 (MQ=255)

                                                                                            cgcgTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACg                                             >  1:352455/1‑151 (MQ=255)

                                                                                                     gAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGc                                    >  1:173573/1‑151 (MQ=255)

                                                                                                                   gATGGCGGAATTGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGAtgctg                      <  1:210253/151‑1 (MQ=255)

                                                                                                                             ttGCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGc            >  1:442145/1‑151 (MQ=255)

                                                                                                                               gCTGATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGcc           <  2:209004/150‑1 (MQ=255)

                                                                                                                                  gATCGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGCCGa         <  1:311932/149‑1 (MQ=255)

                                                                                                                                     cGGGTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGCCGAATATg    <  2:442137/151‑1 (MQ=255)

                                                                                                                                       ggTCGCGCAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGCCGAATATGGa  <  1:443613/151‑1 (MQ=255)

TGCTGGAAGTCGAACGGCTACACAGTCATTTGCTTAACCTTGGCCTCTCCTGCCATTTCGTTGGTTTTGATACCGGCTTTATGCAATTTTTCCGCGTGCGGGAAAAGTCGATGACGATGGCGGAATTGCTGATCGGGTCGCGTAAAACCTACGGTCTGAATCTGATTGGTGGTGTTCGCCGCGATATTCTCAAAGAGCAACGTCTGCAAACGCTGAAACTGGTGCGCGAGATGCGCGCCGACGTGTCGGAGCTGGTAGAGATGCTGCTTGCTACGCCGAATATGGA  >  NC_000913/2609316‑2609601

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A