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
A9 F1 I2 R1	78	48.0	2243616	94.8%	2126947	114.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,284,097	T→C	intergenic (‑150/‑32)	yejK ← / → yejL	spermidine nucleoid‑associated protein/UPF0352 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,284,097	0	T	C	95.5%	148.3 / ‑1.9	44	intergenic (‑150/‑32)	yejK/yejL	spermidine nucleoid‑associated protein/UPF0352 family protein
Reads supporting (aligned to +/- strand): ref base T (1/1); new base C (19/23); total (20/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.94e-01

AAGACCGGGCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGTTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTGGAAAAACATAAGGCTCCGACCGACCTTTCCCTGA  >  NC_000913/2283963‑2284231

aaGACCGGGCGGTATTCAACCACCGCCGGTTAAGCGACGCAATCAAAGATGGCGGTCATTTTACAGAAGGCAGCGAAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGcc                                                                                                                                    <  1:728060/139‑1 (MQ=255)

aaGACCGGGCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGcc                                                                                                                                    <  1:783481/139‑1 (MQ=255)

      gggCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGTTGcc                                                                                                                                    >  1:351324/1‑133 (MQ=255)

      gggCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGTTGcc                                                                                                                                    <  2:351324/133‑1 (MQ=255)

      gggCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTtca                                                                                                                              >  1:326067/1‑139 (MQ=255)

      gggCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTtca                                                                                                                              >  2:423572/1‑139 (MQ=255)

      gggCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTtca                                                                                                                              >  1:536781/1‑139 (MQ=255)

       ggCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTtcat                                                                                                                             >  2:109409/1‑139 (MQ=255)

                    caccGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGAtt                                                                                                                <  2:326067/139‑1 (MQ=255)

                      ccgccgGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTc                                                                                                              >  2:256758/1‑139 (MQ=255)

                      ccgccgGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTc                                                                                                              >  2:62426/1‑139 (MQ=255)

                                 gCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCca                                                                                                   >  1:1051664/1‑139 (MQ=255)

                                       cAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATAAATTAACGCATAAACAAGCAGAAAAAAAACCGTTGCTACGGAAATAGGTTCCCCTTTCACCAACTAACTGATTTCAATTTATGGCACAAttt                                                                                             >  1:923756/1‑139 (MQ=255)

                                          tAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTcc                                                                                          <  2:360662/139‑1 (MQ=255)

                                          tAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTcc                                                                                          <  1:423572/139‑1 (MQ=255)

                                          tAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTGGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTcc                                                                                          <  2:116990/139‑1 (MQ=255)

                                               gATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTa                                                                                     <  2:425454/139‑1 (MQ=255)

                                               gATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTa                                                                                     <  1:374484/139‑1 (MQ=255)

                                               gATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTa                                                                                     <  1:749639/139‑1 (MQ=255)

                                                 tGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACa                                                                                   <  1:62426/139‑1 (MQ=255)

                                                 tGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACa                                                                                   <  2:1004057/139‑1 (MQ=255)

                                                  ggCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGcc                                                                                                                                    <  1:662414/89‑1 (MQ=255)

                                                  ggCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGcc                                                                                                                                    >  2:662414/1‑89 (MQ=255)

                                                    cGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCaactaac                                                                                                                     >  1:771739/1‑102 (MQ=255)

                                                    cGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCaactaac                                                                                                                     <  2:771739/102‑1 (MQ=255)

                                                    cGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACa                                                                                   <  2:788684/136‑1 (MQ=255)

                                                    cGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACa                                                                                   >  1:788684/1‑136 (MQ=255)

                                                                 gAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAAc                                                                          >  2:663758/1‑132 (MQ=255)

                                                                 gAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAAc                                                                          <  1:663758/132‑1 (MQ=255)

                                                                    ggCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACa                                                                >  1:1025663/1‑139 (MQ=255)

                                                                    ggCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACa                                                                >  1:499318/1‑139 (MQ=255)

                                                                     gCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACaa                                                               >  2:3053/1‑139 (MQ=255)

                                                                       aGCGTAACGAGAATGATTTAATGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCGTGCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAAtt                                                             <  1:652256/139‑1 (MQ=255)

                                                                       aGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAAtt                                                             <  1:109409/139‑1 (MQ=255)

                                                                         cGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGc                                                           >  1:242809/1‑139 (MQ=255)

                                                                                 gaATGATTTAACGCATAAAAAAGCAGAAAAAATACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCagag                                                   <  1:833088/139‑1 (MQ=255)

                                                                                        ttAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCa                                            <  1:468443/139‑1 (MQ=255)

                                                                                            cGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGt                                        >  2:701870/1‑139 (MQ=255)

                                                                                                 aaaaaaGCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTgg                                   >  1:708041/1‑139 (MQ=255)

                                                                                                       gCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAgctgct                                              <  1:479808/122‑1 (MQ=255)

                                                                                                       gCAGAAAAAAAACCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAgctgct                                              >  2:479808/1‑122 (MQ=255)

                                                                                                           aaaaaaaaCCGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTGGAAAAACATaa                         >  2:657148/1‑139 (MQ=255)

                                                                                                                    cGTTGCTACGGTAATATGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTGGAAAAACATAAGGCTccgac                <  2:708041/139‑1 (MQ=255)

                                                                                                                                  tatGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTGGAAAAACATAAGGCTCCGACCGACCTTTCCCTGa  <  2:347889/139‑1 (MQ=255)

                                                                                                                                  tatGCTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTGGAAAAACATAAGGCTCCGACCGACCTTTCCCTGa  <  2:499318/139‑1 (MQ=255)

AAGACCGGGCGGTATTCAACCACCGCCGGTTAAGCGACGCAATAAAAGATGGCGGTCATTTTACAGAAGGCAGCGTAACGAGAATGATTTAACGCATAAAAAAGCAGAAAAAAAACCGTTGCTACGGTAATATGTTGCCCTTTCATCAACTAACTGATTTCGATTTATGCCACAAATTTCCCGCTACAGTGATGAACAGGTTGAACAATTGCTCGCAGAGCTGCTCAACGTACTGGAAAAACATAAGGCTCCGACCGACCTTTCCCTGA  >  NC_000913/2283963‑2284231

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A