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 F1 I2 R1	766	55.6	2631458	94.7%	2491990	109.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,353,155	G→A	A299V (GCG→GTG)	yhcC ←	putative Fe‑S oxidoreductase, Radical SAM superfamily protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,353,155	0	G	A	97.8%	142.1 / ‑4.9	46	A299V (GCG→GTG)	yhcC	putative Fe‑S oxidoreductase, Radical SAM superfamily protein
Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (22/23); total (22/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

TCATTAGGGAATTCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACCTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCGCCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCGGTGGTAGATCACT  >  NC_000913/3353022‑3353286

tCATTAGGGAATTCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACCTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCGCCGAt                                                                                                                                <  1:531106/139‑1 (MQ=255)

   ttAGGGAATTCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCAGTTGGAGGTAGCCACGGACGTCCCAGCACCGATccc                                                                                                                             >  1:824515/1‑139 (MQ=255)

       ggAATTCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTa                                                                                                                         >  2:918176/1‑139 (MQ=255)

           ttCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGcc                                                                                                                     >  2:329784/1‑139 (MQ=255)

           ttCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGcc                                                                                                                     <  2:1171037/139‑1 (MQ=255)

           ttCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGcc                                                                                                                     >  2:653564/1‑139 (MQ=255)

            tCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCa                                                                                                                    <  1:1297434/139‑1 (MQ=255)

              cTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGa                                                                                                                                 <  1:31065/124‑1 (MQ=255)

              cTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGa                                                                                                                                 >  2:31065/1‑124 (MQ=255)

                tCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGTAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGtt                                                                                                                <  2:928217/139‑1 (MQ=255)

                tCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGtt                                                                                                                <  1:653564/139‑1 (MQ=255)

                   cGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGttcat                                                                                                             >  2:103724/1‑139 (MQ=255)

                                    aataCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGc                                                                                            <  2:1004302/139‑1 (MQ=255)

                                       aCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGGGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGc                                                                                                                      <  1:619911/110‑1 (MQ=255)

                                       aCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGGGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGc                                                                                                                      >  2:619911/1‑110 (MQ=255)

                                       aCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGttcat                                                                                                             <  2:139806/119‑1 (MQ=255)

                                       aCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGttcat                                                                                                             >  1:139806/1‑119 (MQ=255)

                                       aCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCg                                                                                         >  2:651284/1‑139 (MQ=255)

                                       aCCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCg                                                                                         >  2:699311/1‑139 (MQ=255)

                                         ccAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGAc                                                                                       <  1:918176/139‑1 (MQ=255)

                                           aaTTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCa                                                                                     >  2:786971/1‑139 (MQ=255)

                                                       tACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATc                                                                         >  2:724055/1‑139 (MQ=255)

                                                              taAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGttcatt                                                                                                            >  1:1251043/1‑97 (MQ=255)

                                                              taAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGttcatt                                                                                                            <  2:1251043/97‑1 (MQ=255)

                                                               aaaTTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCg                                                                 <  2:159658/139‑1 (MQ=255)

                                                                aaTTGTGTGAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGc                                                                >  2:1116119/1‑139 (MQ=255)

                                                                    gtgtgAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGcacca                                                            <  1:103724/139‑1 (MQ=255)

                                                                     tgtgAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAg                                                                                                     <  2:279656/97‑1 (MQ=255)

                                                                     tgtgAGAAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAg                                                                                                     >  1:279656/1‑97 (MQ=255)

                                                                          gaAATGCGGAATTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCgg                                                      <  1:651284/139‑1 (MQ=255)

                                                                                   aaTTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGc                                                        >  2:382945/1‑128 (MQ=255)

                                                                                   aaTTCCCCTCAACGACTTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGc                                                        <  1:382945/128‑1 (MQ=255)

                                                                                                     aCTCCGTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCt                           >  1:341696/1‑139 (MQ=255)

                                                                                                          gTTGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCgg                      >  2:557033/1‑139 (MQ=255)

                                                                                                           ttGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGa                     <  2:52400/139‑1 (MQ=255)

                                                                                                            tGGAGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGaa                    >  1:926566/1‑139 (MQ=255)

                                                                                                               aGGTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATg                 <  1:1116119/139‑1 (MQ=255)

                                                                                                                ggTAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGc                <  2:341696/139‑1 (MQ=255)

                                                                                                                  tAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCgg              <  1:699311/139‑1 (MQ=255)

                                                                                                                  tAGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCgg              <  1:329784/139‑1 (MQ=255)

                                                                                                                   aGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGa                                                                                        >  1:45888/1‑64 (MQ=255)

                                                                                                                   aGCCACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGa                                                                                        <  2:45888/64‑1 (MQ=255)

                                                                                                                     ccACGGACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCgctgg           <  1:894563/139‑1 (MQ=255)

                                                                                                                          gACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGTCGACGGGCGCTGGCGGAAATGCGGTGGTAGAt      <  2:781631/139‑1 (MQ=255)

                                                                                                                          gACGTCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCGGTGGTAGAt      >  1:974285/1‑139 (MQ=255)

                                                                                                                              tCCCAGCACCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCGGTGGTAGATCACt  >  2:908119/1‑139 (MQ=255)

TCATTAGGGAATTCCTTCACGACAACCTGCCCCAATAATACCCAATTCTGACAGTTACGTTATAAATTGTGTGAGAAATGCGGAATTCCCCTCAACGACCTACTCCGTTGGAGGTAGCCACGGACGTCCCAGCGCCGATCCCTGTACGCCATGTTCATTCAGATAGCGATCCAGCTCGACCATTCCCGTCCATCGATTTTCGCACCACAGCGGAGCAAGCAGCGTCGGGCGACGGGCGCTGGCGGAAATGCGGTGGTAGATCACT  >  NC_000913/3353022‑3353286

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