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
A4 F28 I1 R1	164	66.7	2276140	99.1%	2255654	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,749,698	T→C	Y309H (TAT→CAT)	yfjD →	putative inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,749,698	0	T	C	100.0%	101.0 / NA	28	Y309H (TAT→CAT)	yfjD	putative inner membrane protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (11/17); total (11/17)

AAAAGAGTTCACCAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGTATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTCGGTGATTATCGATGG  >  NC_000913/2749565‑2749831

aaaaGAGTTCACCAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGgag                                                                                                                                 <  2:254508/140‑1 (MQ=255)

 aaaGAGTTCACCAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGgaga                                                                                                                                <  2:1102727/140‑1 (MQ=255)

 aaaGAGTTCACCAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGgaga                                                                                                                                <  1:1111509/140‑1 (MQ=255)

       ttCACCAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCa                                                                                                                          <  2:530687/140‑1 (MQ=255)

           ccAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAgggg                                                                                                                      <  2:887672/140‑1 (MQ=255)

                gAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGt                                                                                                                 <  1:136843/140‑1 (MQ=255)

                            cgcgcCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGa                                                                                                     >  1:486881/1‑140 (MQ=255)

                            cgcgcCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGa                                                                                                     <  1:864442/140‑1 (MQ=255)

                              cgccgcGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGata                                                                                                   >  2:607055/1‑140 (MQ=255)

                                ccgcGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATAtt                                                                                                 <  1:1029886/140‑1 (MQ=255)

                                 cgcgGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTc                                                                                                >  1:890393/1‑140 (MQ=255)

                                           aTCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAag                                                                                          <  2:591856/136‑1 (MQ=255)

                                           aTCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAag                                                                                          >  1:591856/1‑136 (MQ=255)

                                                    gtgCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGa                                                                             >  1:739852/1‑140 (MQ=255)

                                                    gtgCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGa                                                                             <  1:607055/140‑1 (MQ=255)

                                                         ggAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCa                                                                        <  2:545261/140‑1 (MQ=255)

                                                                     gcTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGt                                                            >  1:1119307/1‑140 (MQ=255)

                                                                      cTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTc                                                           >  1:928747/1‑140 (MQ=255)

                                                                            aCGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAac                                                     <  2:486881/140‑1 (MQ=255)

                                                                                          gTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAgg                                       >  2:1013551/1‑140 (MQ=255)

                                                                                            ttCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTc                                     >  1:330467/1‑140 (MQ=255)

                                                                                                     acaaAAAGAAAGTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCaa                            <  1:1013551/140‑1 (MQ=255)

                                                                                                               agTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGtt                  <  2:319654/140‑1 (MQ=255)

                                                                                                                gTCGGCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTc                 <  2:890393/140‑1 (MQ=255)

                                                                                                                    gCCTGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTCGGTg             >  2:668948/1‑140 (MQ=255)

                                                                                                                       tGGTCGTCAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTCGGTGAtt          <  1:406250/140‑1 (MQ=255)

                                                                                                                              cAACGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTCGGTGATTATCGATg   >  1:967116/1‑140 (MQ=255)

                                                                                                                               aaCGAGCATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTCGGTGATTATCGATgg  <  1:668948/140‑1 (MQ=255)

AAAAGAGTTCACCAAAGAAACCATGCTGCGCGCCGCGGACGAGATCTATTTTGTGCCGGAAGGTACGCCGCTCAGCACGCAGTTGGTAAAGTTTCAGCGCAACAAAAAGAAAGTCGGCCTGGTCGTCAACGAGTATGGAGACATTCAGGGGCTGGTGACGGTTGAAGATATTCTGGAAGAGATTGTCGGCGATTTCACTACGTCGATGTCGCCAACACTTGCCGAAGAGGTCACGCCGCAAAACGACGGTTCGGTGATTATCGATGG  >  NC_000913/2749565‑2749831

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A