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
A95 F1 I1 R1	16	38.4	2546724	96.0%	2444855	75.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	REL606	3,014,857	T→G	L93R (CTG→CGG)	ECB_02816 →	KpsD protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	REL606	3,014,857	0	T	G	100.0%	107.0 / NA	27	L93R (CTG→CGG)	ECB_02816	KpsD protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base G (10/17); total (10/17)

TGGTGCTCAACTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCTGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGAT  >  REL606/3014786‑3014923

tGGTGCTCAACTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAAt                                                                >  1:106346/1‑76 (MQ=255)

tGGTGCTCAACTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAAt                                                                <  1:779626/76‑1 (MQ=255)

tGGAGCTCAACTTTTCAACGGCACCAGCGCGGTTAGCGGCACGACGGAAGGATTCAACCCTGACTATATTCGGAAt                                                                >  2:927797/1‑76 (MQ=255)

  gTGCTCAACTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATcc                                                              >  1:510593/1‑76 (MQ=255)

     cTCAACTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCggg                                                           <  1:1079048/76‑1 (MQ=255)

         aCTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGAt                                                       >  1:1206392/1‑76 (MQ=255)

            tttCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGc                                                    <  2:361210/76‑1 (MQ=255)

             ttCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCa                                                   <  2:917942/76‑1 (MQ=255)

                     ccccAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGtt                                           <  1:598608/74‑1 (MQ=255)

                       ccAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCg                                         <  1:1255269/76‑1 (MQ=255)

                        cAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGc                                        >  2:1209449/1‑76 (MQ=255)

                              ggATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTgg                                  <  1:1095732/76‑1 (MQ=255)

                                     ggTGCGGCGGTAGGATTCTACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGt                           <  1:37496/76‑1 (MQ=255)

                                      gTGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGtt                          <  1:348527/76‑1 (MQ=255)

                                       tGCGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTc                         >  1:973957/1‑76 (MQ=255)

                                         cGACGGTAGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCAc                       <  1:279601/76‑1 (MQ=255)

                                                aGGATTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGAt                >  2:808072/1‑76 (MQ=255)

                                                   aTTCAACCCTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGt             <  2:636429/76‑1 (MQ=255)

                                                   aTTCAACCCGGACTATAGTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGt             <  1:741490/76‑1 (MQ=255)

                                                          ccTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTAc      <  1:111350/76‑1 (MQ=255)

                                                          ccTGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTAc      <  1:36136/76‑1 (MQ=255)

                                                            tGACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAg    <  1:514259/76‑1 (MQ=255)

                                                             taCTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGa   >  2:883175/2‑76 (MQ=255)

                                                             gACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGa   <  1:516680/76‑1 (MQ=255)

                                                             gACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGa   >  2:538504/1‑76 (MQ=255)

                                                             gACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGa   >  1:364396/1‑76 (MQ=255)

                                                             gACTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGa   <  1:170426/76‑1 (MQ=255)

                                                              aCTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGAt  <  2:279215/76‑1 (MQ=255)

                                                              aCTATATTCGGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGAt  >  2:612800/1‑76 (MQ=255)

TGGTGCTCAACTTTTCAACGGCACCAGCGCGGATAGCGGTGCGACGGTAGGATTCAACCCTGACTATATTCTGAATCCGGGTGATAGCATTCAGGTTCGCTTGTGGGGTGCGTTCACCTTTGATGGTGCATTACAGAT  >  REL606/3014786‑3014923

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 23 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A