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 F1 I2 R1	764	42.0	2018750	95.5%	1927906	109.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	776,397	C→T	A19V (GCA→GTA)	tolA →	membrane anchored protein in TolA‑TolQ‑TolR complex

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	776,397	0	C	T	100.0%	112.1 / NA	36	A19V (GCA→GTA)	tolA	membrane anchored protein in TolA‑TolQ‑TolR complex
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (14/22); total (14/22)

GCAGCCTATCTAAACATCTGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGCAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATGGTTGATTCAGGTGCGG  >  NC_000913/776265‑776519

gCAGCCTATCTAAACATCTGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGtgct                                                                                                                      <  1:730138/139‑1 (MQ=255)

    ccTATCTAAACATCTGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCAt                                                                                                                  <  1:215270/139‑1 (MQ=255)

                  tGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgc                                                                                                    >  2:447600/1‑139 (MQ=255)

                  tGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgc                                                                                                    >  2:597711/1‑139 (MQ=255)

                  tGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgc                                                                                                    >  1:424172/1‑139 (MQ=255)

                    cGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGtgc                                                                                                                       <  1:777854/118‑1 (MQ=255)

                    cGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGtgc                                                                                                                       >  2:777854/1‑118 (MQ=255)

                    cGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgcgg                                                                                                  <  1:875998/139‑1 (MQ=255)

                      tttCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCACAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgcggcg                                                                                                <  1:638661/139‑1 (MQ=255)

                        tCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCt                                                                                              <  2:961485/139‑1 (MQ=255)

                           cttgcttgAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGAt                                                                                           <  1:597711/139‑1 (MQ=255)

                            ttgcttgAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATc                                                                                          >  1:875296/1‑139 (MQ=255)

                                         agCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGttcgttcg                                                                             >  1:552282/1‑139 (MQ=255)

                                           cGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGAt                                                                           <  2:748489/139‑1 (MQ=255)

                                           cGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGAt                                                                           <  2:525541/139‑1 (MQ=255)

                                                        aaCAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgcgg                                                                                                  >  2:932143/1‑103 (MQ=255)

                                                        aaCAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgcgg                                                                                                  <  1:932143/103‑1 (MQ=255)

                                                          cAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCt                                                            >  2:869506/1‑139 (MQ=255)

                                                                     aaCCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAgg                                                 <  2:424172/139‑1 (MQ=255)

                                                                                tCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGtt                                      <  1:447600/139‑1 (MQ=255)

                                                                                  aaaGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCAt                                                                                                                  >  1:302981/1‑61 (MQ=255)

                                                                                  aaaGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCAt                                                                                                                  <  2:302981/61‑1 (MQ=255)

                                                                                          ccGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAgttcgttc                                                                              <  2:643521/89‑1 (MQ=255)

                                                                                          ccGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAgttcgttc                                                                              >  1:643521/1‑89 (MQ=255)

                                                                                          ccGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGAt                                                                           >  1:812876/1‑92 (MQ=255)

                                                                                          ccGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGAt                                                                           <  2:812876/92‑1 (MQ=255)

                                                                                          ccGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGa                            <  1:869506/139‑1 (MQ=255)

                                                                                                    cGACAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATg                  <  2:853847/139‑1 (MQ=255)

                                                                                                      aCAAGCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATGGt                <  2:552282/139‑1 (MQ=255)

                                                                                                          gCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgcggcg                                                                                                >  1:992703/1‑55 (MQ=255)

                                                                                                          gCTCAAGCGGGCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTgcggcg                                                                                                <  2:992703/55‑1 (MQ=255)

                                                                                                                   ggCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATGGTTGATTCAGGTGCg   >  2:76602/1‑139 (MQ=255)

                                                                                                                    gCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATGGTTGATTCAGGTGCgg  <  2:875296/139‑1 (MQ=255)

                                                                                                                    gCGATAATTATTTCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATGGTTGATTCAGGTGCgg  <  1:555110/139‑1 (MQ=255)

                                                                                                                               ttCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGAt                                                                           >  2:694640/1‑55 (MQ=255)

                                                                                                                               ttCAGTAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGAt                                                                           <  1:694640/55‑1 (MQ=255)

GCAGCCTATCTAAACATCTGCGTTTCCCTTGCTTGAAAGAGAGCGGGTAACAGGCGAACAGTTTTTGGAAACCGAGAGTGTCAAAGGCAACCGAACAAAACGACAAGCTCAAGCGGGCGATAATTATTTCAGCAGTGCTGCATGTCATCTTATTTGCGGCGCTGATCTGGAGTTCGTTCGATGAGAATATAGAAGCTTCAGCCGGAGGCGGCGGTGGTTCGTCCATCGACGCTGTCATGGTTGATTCAGGTGCGG  >  NC_000913/776265‑776519

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A