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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

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%	127.1 / 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 (24/11); total (24/11)

ACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCATGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTGCGCTAAGTG  >  NC_000913/3199313‑3199562

aCCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATtcgt                                                                                                                 <  2:1055722/139‑1 (MQ=255)

   aGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCgg                                                                                                              >  2:511619/1‑139 (MQ=255)

   aGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCgg                                                                                                              >  1:297847/1‑139 (MQ=255)

     tGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGcc                                                                                                            >  1:743833/1‑139 (MQ=255)

      gCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCt                                                                                                           >  1:115919/1‑139 (MQ=255)

               tGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGtt                                                                                                  >  2:198743/1‑139 (MQ=255)

                 cgcCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGTAACCACGCCGCGTAAGGCTGCCATTCGTCGGCCTGCGGCGGTTgg                                                                                                <  2:609620/139‑1 (MQ=255)

                    ccAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCtt                                                                                             <  1:369928/139‑1 (MQ=255)

                                           gccgccGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTgg                                                                      >  2:761614/1‑139 (MQ=255)

                                                        ccGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACg                                                         <  2:115919/139‑1 (MQ=255)

                                                          gCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGTGCAATCACGCt                                                       <  2:743833/139‑1 (MQ=255)

                                                                   gcATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGcac                                              >  1:229941/1‑139 (MQ=255)

                                                                                             ttACAGAGCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACt                    >  2:156785/1‑139 (MQ=255)

                                                                                                  gagCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGcc               >  1:1000852/1‑139 (MQ=255)

                                                                                                  gagCGCCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGcc               >  1:160790/1‑139 (MQ=255)

                                                                                                    gcgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtg             <  2:229941/139‑1 (MQ=255)

                                                                                                    gcgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtg             <  1:94013/139‑1 (MQ=255)

                                                                                                    gcgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtg             >  1:28391/1‑139 (MQ=255)

                                                                                                     cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACt                        <  2:176708/127‑1 (MQ=255)

                                                                                                     cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACt                        >  1:176708/1‑127 (MQ=255)

                                                                                                     cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgt            >  2:874651/1‑139 (MQ=255)

                                                                                                     cgcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgt            >  2:328376/1‑139 (MQ=255)

                                                                                                      gcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACg                                                         >  2:445272/1‑93 (MQ=255)

                                                                                                      gcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACg                                                         <  1:445272/93‑1 (MQ=255)

                                                                                                      gcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgtg           >  1:1014243/1‑139 (MQ=255)

                                                                                                      gcCTCCTGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCtgtg           >  1:18617/1‑139 (MQ=255)

                                                                                                      gcCTCCTGCAACCACGCCGCATAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGACCTGACTTCGCCtgtg           >  1:715129/1‑139 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACg                                                         >  1:92139/1‑91 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACg                                                         <  2:92139/91‑1 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTa                                    >  2:550985/1‑112 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTa                                    <  1:550985/112‑1 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTgcg         >  2:219849/1‑139 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTgcg         >  1:317192/1‑139 (MQ=255)

                                                                                                        ctcctGCAACCACGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTgcg         >  1:31660/1‑139 (MQ=255)

                                                                                                               aaCCACGCCGCGTAATGCTGCCATTCGTGGGCCTACGGCGGTTGGCTTTACAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTGCGCTAAGTg  >  2:683597/1‑139 (MQ=255)

ACCAGTGCCAGCGTTTGCGCCCAGGCGATGCGCACCATAATGCGCCGCCGGAATAGCCGCAGCTCGCGCATTAACCCGGCTTCGTCACTCACATTACAGAGCGCCTCCTGCAACCATGCCGCGTAATGCTGCCATTCGTCGGCCTGCGGCGGTTGGCTTTCCAGTTCCGTCAGCCACTCTGGATGCGCAATCACGCTGTCCTGCACAAAATCACTAAAAGTAAGTACTGACTTCGCCTGTGCGCTAAGTG  >  NC_000913/3199313‑3199562

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A