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 F50 I1 R1	170	39.5	1266514	99.2%	1256381	150.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,148,579	C→T	A320V (GCA→GTA)	plsX →	putative phosphate acyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,148,579	0	C	T	100.0%	109.3 / NA	30	A320V (GCA→GTA)	plsX	putative phosphate acyltransferase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (15/15); total (15/15)

GTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACGCTGCCAGCGAACTCGCAGTTTGCAAGTG  >  NC_000913/1148432‑1148726

gTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAg                                                                                                                                                   >  2:217751/1‑150 (MQ=255)

        cAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCgg                                                                                                                                          <  1:429880/151‑1 (MQ=255)

            agagCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGc                                                                                                                                       >  1:402995/1‑150 (MQ=255)

                   gACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACa                                                                                                                                >  1:306437/1‑150 (MQ=255)

                    aCGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACa                                                                                                                                >  1:286430/1‑149 (MQ=255)

                      gAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGtt                                                                                                                            <  2:124922/151‑1 (MQ=255)

                       aGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTc                                                                                                                           >  2:248218/1‑151 (MQ=255)

                        ggCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTcc                                                                                                                          <  2:194204/151‑1 (MQ=255)

                            aTTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAg                                                                                                                      <  2:211411/151‑1 (MQ=255)

                              tCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGc                                                                                                                     <  1:522084/150‑1 (MQ=255)

                               cAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCg                                                                                                                    >  2:200829/1‑150 (MQ=255)

                                                        aaCGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGta                                                                                           >  1:576967/1‑150 (MQ=255)

                                                           ggCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATAcc                                                                                       >  1:541671/1‑151 (MQ=255)

                                                             cgcCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCa                                                                                     <  2:442567/151‑1 (MQ=255)

                                                                   tctgtTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTgg                                                                                >  2:484252/1‑150 (MQ=255)

                                                                         aGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGtttt                                                                            >  2:9919/1‑148 (MQ=255)

                                                                           gATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAg                                                                         <  2:205734/149‑1 (MQ=255)

                                                                                cgcgGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTgg                                                                  >  1:130555/1‑151 (MQ=255)

                                                                                   ggCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACg                                                               <  1:379152/151‑1 (MQ=255)

                                                                                    gCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACgg                                                              <  2:464066/151‑1 (MQ=255)

                                                                                       cGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTgg                                                           <  2:324948/151‑1 (MQ=255)

                                                                                          tGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTgg                                                           >  1:226103/1‑148 (MQ=255)

                                                                                          tGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCa                                                         >  2:319263/1‑150 (MQ=255)

                                                                                                 aaGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGa                                                 <  1:403916/151‑1 (MQ=255)

                                                                                                     cATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAActc                                             <  1:137124/151‑1 (MQ=255)

                                                                                                                    cAGCGAGCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACg                              >  1:525602/1‑151 (MQ=255)

                                                                                                                          gCTTTTGCGGTCGCGATTGAACAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACGCTGcc                         >  1:266339/1‑150 (MQ=255)

                                                                                                                                             aaCAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACGCTGCCAGCGAACTCGCAGTTTGc       <  1:511416/149‑1 (MQ=255)

                                                                                                                                              aCAGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACGCTGCCAGCGAACTCGCAGTTTGCAAg    <  1:319270/151‑1 (MQ=255)

                                                                                                                                                aGGTAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACGCTGCCAGCGAACTCGCAGTTTGCAAGTg  <  2:259043/151‑1 (MQ=255)

GTTGGCTACAAAAGAGCCTGACGAGGCGATTCAGTCACCTCAACCCCGACCAGTATAACGGCGCCTGTCTGTTAGGATTGCGCGGCACGGTGATAAAAAGTCATGGTGCAGCCAATCAGCGAGCTTTTGCGGTCGCGATTGAACAGGCAGTGCAGGCGGTGCAGCGACAAGTTCCTCAGCGAATTGCCGCTCGCCTGGAATCTGTATACCCAGCTGGTTTTGAGCTGCTGGACGGTGGCAAAAGCGGAACTCTGCGGTAGCAGGACGCTGCCAGCGAACTCGCAGTTTGCAAGTG  >  NC_000913/1148432‑1148726

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A