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	2,698,231	T→C	Y107C (TAC→TGC)	pgpC ←	phosphatidylglycerophosphatase C, membrane bound

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,698,231	0	T	C	100.0%	71.7 / NA	22	Y107C (TAC→TGC)	pgpC	phosphatidylglycerophosphatase C, membrane bound
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (13/9); total (13/9)

CCACCATAGCCACGCTGAATTTGGCTGGCGATAAGATTAACCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGTAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAACGTGCTTCGCTGTGACCAAAAGTGCACC  >  NC_000913/2698096‑2698345

ccaccaTAGCCACGCTGAATTTGGCTGGCGATAAGATTAACCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAAcaggcagg                                                                                                                 >  2:293264/1‑139 (MQ=255)

        gCCACGCTGAATTTGGCTGGCGATAAGATTAACCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAAt                                                                                                         <  1:293264/139‑1 (MQ=255)

             gCTGAATTTGGCTGGCGATAAGATTAACCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTc                                                                                                    >  2:755920/1‑139 (MQ=255)

              cTGAATTTGGCTGGCGATAAGATTAACCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTcc                                                                                                   >  2:638206/1‑139 (MQ=255)

                                       aCCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAAt                                                                                                         <  1:240018/108‑1 (MQ=255)

                                       aCCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAAt                                                                                                         >  2:240018/1‑108 (MQ=255)

                                       aCCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACAt                                                                          >  2:74960/1‑139 (MQ=255)

                                             ggCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTcgc                                                                    >  2:1002949/1‑139 (MQ=255)

                                               cAGCCAGGACGTATGAAAATAAACCGCTTCCACAAGCGGCTGCGGACAGCCGGTAATCAAACAGATATCAGCATCGGAACTTAACAGGCACGTGGTTAATCGCTCCTGGACCAGCGGAAAGGCGGTAACATTGTCGCGa                                                                  <  1:638206/139‑1 (MQ=255)

                                                                         cTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCaa                                        >  2:238599/1‑139 (MQ=255)

                                                                                         cGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAAAGTGCt                        >  1:932088/1‑139 (MQ=255)

                                                                                         cGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCCCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAACGTGCt                        <  1:74960/139‑1 (MQ=255)

                                                                                              agCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATc                                                                                                        >  1:261151/1‑54 (MQ=255)

                                                                                              agCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATc                                                                                                        <  2:261151/54‑1 (MQ=255)

                                                                                                ccGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAACGTGCTTCGCtgt                 >  1:221651/1‑139 (MQ=255)

                                                                                                     aaTCAACCAGATATCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAACGTGCTTCGCTGTGACCa            <  2:360430/139‑1 (MQ=255)

                                                                                                               atatCAGCATCGGAACTTAACAGGCAGGTGGTTAAt                                                                                                         <  1:882392/36‑1 (MQ=255)

                                                                                                               atatCAGCATCGGAACTTAACAGGCAGGTGGTTAAt                                                                                                         >  2:882392/1‑36 (MQ=255)

                                                                                                               atatCAGCATCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAACGTGCTTCGCTGTGACCAAAAGTGCAcc  >  1:401477/1‑139 (MQ=255)

                                                                                                                        tCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACAtt                                                                         <  1:922356/59‑1 (MQ=255)

                                                                                                                        tCGGAACTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACAtt                                                                         >  2:922356/1‑59 (MQ=255)

                                                                                                                            aaCTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCa                                                        >  2:204881/1‑72 (MQ=255)

                                                                                                                            aaCTTAACAGGCAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCa                                                        <  1:204881/72‑1 (MQ=255)

CCACCATAGCCACGCTGAATTTGGCTGGCGATAAGATTAACCCGCGGCAGCCAGGGCGTATCGAAATAAACCGCTTCAACCAGCGGCTGCGGAGAGCCGGTAATCAACCAGATATCAGCATCGGAACTTAACAGGTAGGTGGTTAATCGCTCCTGAACCAGCGGAAAGGCGGTAACATTGTCGCGAAACCAGCGCACGAAATCGGCCTGCAACGTCTGTAAACGTGCTTCGCTGTGACCAAAAGTGCACC  >  NC_000913/2698096‑2698345

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A