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	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,673,861	T→C	V167A (GTC→GCC)	yhjD →	putative transporter YhjD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,673,861	0	T	C	97.7%	144.3 / ‑4.4	44	V167A (GTC→GCC)	yhjD	putative transporter YhjD
Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (18/25); total (18/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.50e-01

CACGTTGAAAAACACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGTCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGGCGCAGCAA  >  NC_000913/3673724‑3673994

cACGTTGAAAAACACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCt                                                                                                                                     >  2:837184/1‑140 (MQ=255)

   gTTGAAAAACCCCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTggg                                                                                                                                  <  2:790524/140‑1 (MQ=255)

   gTTGAAAAACACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTggg                                                                                                                                  >  2:191896/1‑140 (MQ=255)

     tGAAAAACACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGaa                                                                                                                                >  2:206838/1‑140 (MQ=255)

     tGAAAAACACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGaa                                                                                                                                >  2:10697/1‑140 (MQ=255)

       aaaaaCACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACg                                                                                                                              <  1:10697/140‑1 (MQ=255)

       aaaaaCACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACg                                                                                                                              <  1:206838/140‑1 (MQ=255)

         aaaCCCCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCt                                                                                                                            <  2:692234/140‑1 (MQ=255)

         aaaCACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCt                                                                                                                            <  1:191896/140‑1 (MQ=255)

         aaaCACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCt                                                                                                                            <  2:311692/140‑1 (MQ=255)

         aaaCACCATCAACACCGCCATTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCt                                                                                                                            <  1:403621/140‑1 (MQ=255)

             cccATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTcgcc                                                                                                                        <  1:343433/139‑1 (MQ=255)

             acCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTcgcc                                                                                                                        >  2:704207/1‑140 (MQ=255)

                ctCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGTCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCa                                                                                                                     <  1:524267/139‑1 (MQ=255)

                    acacCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGAt                                                                                                                 <  1:704207/140‑1 (MQ=255)

                     ccccgccgTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCGCTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATc                                                                                                                <  2:459362/138‑1 (MQ=255)

                         gccgTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGGACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGga                                                                                                            >  2:103312/1‑140 (MQ=255)

                         gccgTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGga                                                                                                            >  2:176082/1‑140 (MQ=255)

                          ccgTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGTGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGgag                                                                                                           <  2:329651/140‑1 (MQ=255)

                          ccgTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGgag                                                                                                           <  1:111070/140‑1 (MQ=255)

                             ttCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAg                                                                                                        >  1:728936/1‑140 (MQ=255)

                               cagcagCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGtt                                                                                                      <  2:669752/140‑1 (MQ=255)

                                agcagcGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGGACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTc                                                                                                     <  1:103312/140‑1 (MQ=255)

                                               tAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGtt                                                                                                      >  2:294197/1‑124 (MQ=255)

                                               tAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGtt                                                                                                      <  1:294197/124‑1 (MQ=255)

                                               tAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACGGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTg                                                                                      <  1:208036/140‑1 (MQ=255)

                                                                           ttATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTttgt                                                          >  2:372205/1‑140 (MQ=255)

                                                                               tCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGTCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGAt                                                      <  2:108570/140‑1 (MQ=255)

                                                                                   gCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTgcg                                                  <  1:372205/140‑1 (MQ=255)

                                                                                                  gTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAGATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCtt                                   <  2:728936/140‑1 (MQ=255)

                                                                                                  gTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCtt                                   >  1:714686/1‑140 (MQ=255)

                                                                                                          cGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGTAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCAc                           >  1:111000/1‑140 (MQ=255)

                                                                                                          cGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGc                                     >  1:869326/1‑130 (MQ=255)

                                                                                                          cGTGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGc                                     <  2:869326/130‑1 (MQ=255)

                                                                                                            tGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCt                         >  2:258791/1‑140 (MQ=255)

                                                                                                            tGAAGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCt                         >  1:777767/1‑140 (MQ=255)

                                                                                                              aaGCGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCg                       <  1:837184/140‑1 (MQ=255)

                                                                                                                 cGATTCGTGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGtt                    >  1:649795/1‑140 (MQ=255)

                                                                                                                        tGCCCAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGtt             <  2:714686/140‑1 (MQ=255)

                                                                                                                            cAGTCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGgc         <  2:649795/140‑1 (MQ=255)

                                                                                                                               tCGCGCGATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGGCgca      >  2:602339/1‑140 (MQ=255)

                                                                                                                                  cgcgATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGGCgcagc    <  2:869998/139‑1 (MQ=255)

                                                                                                                                  cgcgATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGGCgcagc    >  1:869998/1‑139 (MQ=255)

                                                                                                                                   gcgATGCCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGGCGCAGCaa  <  1:801949/140‑1 (MQ=255)

CACGTTGAAAAACACCATCAACACCGCCGTTCAGCAGCGTACGACTGTAGGGCTTGTCGGCCTGGCGGTGGCACTTTATTCCGGCATCAACTGGATGGGTAACCTGCGTGAAGCGATTCGTGCCCAGTCGCGCGATGTCTGGGAACGCTCGCCGCAAGATCAGGAGAAGTTCTGGGTAAAATATCTGCGAGATTTTATTTCGCTGATTGGTTTGTTGATTGCGCTGATTGTGACGCTTTCGATCACCTCGGTTGCCGGTTCGGCGCAGCAA  >  NC_000913/3673724‑3673994

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A