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
A8 F1 I2 R1	765	53.2	2691310	93.4%	2513683	103.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,199,429	T→C	A71A (GCA→GCG)	glnE ←	fused deadenylyltransferase/adenylyltransferase for glutamine synthetase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,199,429	0	T	C	100.0%	124.5 / NA	35	A71A (GCA→GCG)	glnE	fused deadenylyltransferase/adenylyltransferase for glutamine synthetase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/15); total (20/15)

AATATGCTCTCTTCAGTAACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCATGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTGCGCT  >  NC_000913/3199295‑3199557

aaTATGCTCTCTTCAGTAACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCcg                                                                                                                              <  1:690067/139‑1 (MQ=255)

       tctctTCAGTAACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAAtg                                                                                                                       <  1:380300/139‑1 (MQ=255)

           ttCAGTAACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAAtg                                                                                                                       <  1:852766/135‑1 (MQ=255)

           ttCAGTAACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAAtg                                                                                                                       >  2:852766/1‑135 (MQ=255)

                 aaCCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATtcg                                                                                                             >  2:367995/1‑139 (MQ=255)

                     aGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCgg                                                                                                         >  2:1092049/1‑139 (MQ=255)

                       tGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATtcgt                                                                                                            <  1:1110653/134‑1 (MQ=255)

                       tGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATtcgt                                                                                                            >  2:1110653/1‑134 (MQ=255)

                        gCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTaa                                                                                                                         <  1:1225842/120‑1 (MQ=255)

                        gCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTaa                                                                                                                         >  2:1225842/1‑120 (MQ=255)

                          cAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTgc                                                                                                    >  1:919556/1‑139 (MQ=255)

                                        aGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATtcgtc                                                                                                           <  1:332450/118‑1 (MQ=255)

                                        aGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATtcgtc                                                                                                           >  2:332450/1‑118 (MQ=255)

                                           cGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACACAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAg                                                                                   <  2:919556/139‑1 (MQ=255)

                                                         aTGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCAct                                                                     <  1:367995/139‑1 (MQ=255)

                                                                          ccGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGTGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACg                                                    <  1:1092049/139‑1 (MQ=255)

                                                                          ccGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCACAATCACg                                                    <  1:413729/139‑1 (MQ=255)

                                                                              aGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGt                                                >  2:1195728/1‑139 (MQ=255)

                                                                                                gCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTaa                              >  1:48349/1‑139 (MQ=255)

                                                                                                     gTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAaagta                         >  2:921343/1‑139 (MQ=255)

                                                                                                            acaTTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTg                  >  1:189854/1‑139 (MQ=255)

                                                                                                                    gagCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATg                                                              >  1:766468/1‑87 (MQ=255)

                                                                                                                    gagCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATg                                                              <  2:766468/87‑1 (MQ=255)

                                                                                                                    gagCGCCGCCTGCAACCACGGCGCGTAATGCTGCCATTCGTTGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCGCGGTGTCCTGCACAAAATCACTAAGAGTAAGTACTGACTTCgtc          <  2:485482/139‑3 (MQ=255)

                                                                                                                      gcgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtg        >  1:952739/1‑139 (MQ=255)

                                                                                                                       cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCttt                                                                                       <  1:762402/59‑1 (MQ=255)

                                                                                                                       cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCttt                                                                                       >  2:762402/1‑59 (MQ=255)

                                                                                                                       cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgt       >  2:239552/1‑139 (MQ=255)

                                                                                                                       cgcATCCTGCAACCACGCCGCGTAATGCTGCAATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgt       >  1:485482/1‑139 (MQ=255)

                                                                                                                        gcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgtg      >  1:882725/1‑139 (MQ=255)

                                                                                                                         cctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGt                                                                                              <  2:528408/50‑1 (MQ=255)

                                                                                                                         cctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGt                                                                                              >  1:528408/1‑50 (MQ=255)

                                                                                                                          ctcctGCAACCACTCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCTGTACGCTTTACACTTCCGTCAACCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTgcg    >  2:1158878/1‑139 (MQ=255)

                                                                                                                          ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTgcg    <  2:189854/139‑1 (MQ=255)

                                                                                                                           tcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTgcgc   <  2:612993/139‑1 (MQ=255)

                                                                                                                            cctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTGCGCt  >  2:1088785/1‑139 (MQ=255)

AATATGCTCTCTTCAGTAACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCATGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTGCGCT  >  NC_000913/3199295‑3199557

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A