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 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,324,876	A→G	L97P (CTG→CCG)	phnC ←	phosphonate ABC transporter ATPase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,324,876	0	A	G	100.0%	144.0 / NA	41	L97P (CTG→CCG)	phnC	phosphonate ABC transporter ATPase
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (19/22); total (19/22)

ATGCCAACGCGGGTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCAGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGATATGGCTACCGACAGATTTATCGCCGGTAATCAA  >  NC_000913/4324741‑4325009

aTGCCAACGCGGGTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGt                                                                                                                                    >  1:47636/1‑139 (MQ=255)

  gCCAACGCGGGTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTg                                                                                                                                  <  1:1104748/139‑1 (MQ=255)

  gCCAACGCGGGTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTg                                                                                                                                  >  2:634113/1‑139 (MQ=255)

       cgcgGGTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAttg                                                                                                                             <  2:1212477/139‑1 (MQ=255)

           ggTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTgg                                                                                                                         >  2:1001364/1‑139 (MQ=255)

            gTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGa                                                                                                                        >  1:1182703/1‑139 (MQ=255)

              cAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAat                                                                                                                      <  1:1493431/139‑1 (MQ=255)

               aGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAata                                                                                                                     <  1:1001364/139‑1 (MQ=255)

                   ccTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTa                                                                                                                 <  2:200324/139‑1 (MQ=255)

                      gTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGcc                                                                                                              <  2:1289230/139‑1 (MQ=255)

                              cgcTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGaa                                                                                                                                >  2:42055/1‑113 (MQ=255)

                              cgcTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGaa                                                                                                                                <  1:42055/113‑1 (MQ=255)

                                            gCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCgg                                                                                        <  1:847732/139‑1 (MQ=255)

                                                          tAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAt                                                                                                                               <  1:189888/86‑1 (MQ=255)

                                                          tAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAt                                                                                                                               >  2:189888/1‑86 (MQ=255)

                                                             aaCAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGc                                                                                                               <  1:966966/99‑1 (MQ=255)

                                                             aaCAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGc                                                                                                               >  2:966966/1‑99 (MQ=255)

                                                                  gTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGTACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAttg                                                                                                                             <  1:797980/80‑1 (MQ=255)

                                                                  gTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGTACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAttg                                                                                                                             >  2:797980/1‑80 (MQ=255)

                                                                  gTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTGTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCtttt                                                                                            <  2:811633/113‑1 (MQ=255)

                                                                  gTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCtttt                                                                                            >  1:811633/1‑113 (MQ=255)

                                                                                  tgctgcCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAttg                                                                                                                             <  1:947044/64‑1 (MQ=255)

                                                                                  tgctgcCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAAttg                                                                                                                             >  2:947044/1‑64 (MQ=255)

                                                                                        cGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCcag                                            <  2:568371/139‑1 (MQ=255)

                                                                                            cgcgcCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCcagcag                                         >  2:247669/1‑138 (MQ=255)

                                                                                            cgcgcCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCcagcag                                         <  1:247669/138‑1 (MQ=255)

                                                                                                 cAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCcagcag                                         <  2:334260/133‑1 (MQ=255)

                                                                                                 cAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCcagcag                                         >  1:334260/1‑133 (MQ=255)

                                                                                                             tctcCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTa                                                                                                                 >  1:285397/1‑49 (MQ=255)

                                                                                                             tctcCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTa                                                                                                                 <  2:285397/49‑1 (MQ=255)

                                                                                                               tcCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTg                                                                                           <  2:1339393/69‑1 (MQ=255)

                                                                                                               tcCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTg                                                                                           >  1:1339393/1‑69 (MQ=255)

                                                                                                               tcCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAgg                                                                         <  2:326922/87‑1 (MQ=255)

                                                                                                               tcCAGTACGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAgg                                                                         >  1:326922/1‑87 (MQ=255)

                                                                                                                      cGCTCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGATATGGCTACCGACAGATTTATc              >  1:1164309/1‑139 (MQ=255)

                                                                                                                         tCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCca                                             <  2:188956/105‑1 (MQ=255)

                                                                                                                         tCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCca                                             >  1:188956/1‑105 (MQ=255)

                                                                                                                         tCAGGCGGTTCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGATATGGCTACCGACAGATTTATCGcc           >  1:1026410/1‑139 (MQ=255)

                                                                                                                                 ttCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGata                                  <  2:760538/108‑1 (MQ=255)

                                                                                                                                 ttCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGata                                  >  1:760538/1‑108 (MQ=255)

                                                                                                                                  tCACCGGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGATATGGCTACCGACAGATTTATCGCCGGTAATCaa  <  2:1026410/139‑1 (MQ=255)

ATGCCAACGCGGGTCAGCGCCTGTAACGCGCGCTGTTTCTGCTCGCCGGTGAACCAGCTAAAACAGGTGCGCCAGAACGGCGTGCTGCCGAGCGCGCCAATCAGCACGTTCTCCAGTACGCTCAGGCGGTTCACCAGGTTGAATTGTTGGAATATGTAGCCGGTATGGGCGCGGCTTTTGCGGATATCGCGGGCCAGGCGGCCTTCGCGCTGGACTGTGCGGCCCAGCAGCTCGATATGGCTACCGACAGATTTATCGCCGGTAATCAA  >  NC_000913/4324741‑4325009

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A