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 F8 I0 R1	82	77.9	2158605	86.8%	1873669	62.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	297,667	C→T	100%	R110C (CGT→TGT)	mdlA →	fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	297,667	0	C	T	100.0%	227.7 / NA	63	R110C (CGT→TGT)	mdlA	fused predicted multidrug transporter subunits and ATP‑binding components of ABC superfamily
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (23/40); total (23/40)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGT  >  minE/297605‑297710

cTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCa                                         >  1:1995953/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCa                                    >  1:1399256/1‑65 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:346212/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:147717/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1511181/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1704323/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1823892/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:197318/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:2140442/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1047997/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:360507/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:620882/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:663775/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:702468/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:7459/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:828705/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:865238/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:940663/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:100353/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1087947/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1445551/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:126913/1‑67 (MQ=255)

       aCTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCAcc                                  >  1:1205519/1‑67 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCCCCGGTGAc                            <  1:974068/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1910382/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1057606/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1066933/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:468233/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:539468/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1272165/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:8738/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1878427/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1352830/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:644664/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1167582/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:1733751/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:691777/67‑1 (MQ=255)

             tGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:901429/67‑1 (MQ=255)

              gAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGAc                            <  1:2034117/66‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:793679/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:468669/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1157223/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:455832/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:837432/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:363259/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:320463/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:298674/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:257214/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:2065211/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:205397/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1811577/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1736274/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1412678/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1636787/67‑1 (MQ=255)

                                       ggCAGCATCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1616940/67‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1225416/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:464369/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:443553/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1219620/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1302718/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1617786/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1444565/66‑1 (MQ=255)

                                        gcagcaTCCTGAGTTTTACCTGTGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGt  <  1:1500688/66‑1 (MQ=255)

CTGTTGAACTGCGTGAAGATTATTACCGTCAGCTAAGCCGGCAGCATCCTGAGTTTTACCTGCGTCATCGCACCGGTGACCTCATGGCTCGTGCGACCAATGACGT  >  minE/297605‑297710

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A