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 F28 I1 R1	155	60.3	2039550	99.3%	2025273	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,779,571	T→C	V173A (GTC→GCC)	lldR →	DNA‑binding transcriptional dual regulator LldR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,779,571	0	T	C	100.0%	152.1 / NA	44	V173A (GTC→GCC)	lldR	DNA‑binding transcriptional dual regulator LldR
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (28/16); total (28/16)

TTGCTTTGAAGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGTCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACGGGGCGCGTAA  >  NC_000913/3779443‑3779700

ttgctttgAAGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCt                                                                                                                        <  2:989200/140‑1 (MQ=255)

      tgAAGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGa                                                                                                                  >  1:113129/1‑140 (MQ=255)

      tgAAGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGa                                                                                                                  >  2:123461/1‑140 (MQ=255)

       gAAGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGaa                                                                                                                 <  2:878148/140‑1 (MQ=255)

        aaGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAg                                                                                                                >  1:833820/1‑140 (MQ=255)

             aCGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAg                                                                                                           >  1:139972/1‑140 (MQ=255)

               gCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGcc                                                                                                         <  2:113129/140‑1 (MQ=255)

                   aGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCa                                                                                                     >  2:751976/1‑140 (MQ=255)

                       aaGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCgg                                                                                                 >  2:378344/1‑140 (MQ=255)

                       aaGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCgg                                                                                                 <  1:378344/140‑1 (MQ=255)

                        aGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGa                                                                                                >  1:109959/1‑140 (MQ=255)

                        aGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGa                                                                                                <  1:837853/140‑1 (MQ=255)

                         gACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGAt                                                                                               <  1:751976/140‑1 (MQ=255)

                                      ccTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCa                                                                                  >  2:964759/1‑140 (MQ=255)

                                           caAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGt                                                                             <  1:152822/140‑1 (MQ=255)

                                              gCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGtttt                                                                          >  1:574888/1‑140 (MQ=255)

                                                      tcgttTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAAc                                                                  >  2:987869/1‑140 (MQ=255)

                                                         ttttCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGa                                                               >  1:272067/1‑140 (MQ=255)

                                                            tCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCg                                                            >  1:585983/1‑140 (MQ=255)

                                                              aTCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGaa                                                          <  2:569471/140‑1 (MQ=255)

                                                                      aTTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCa                                                  <  2:585983/140‑1 (MQ=255)

                                                                        tGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAgg                                                <  2:449904/140‑1 (MQ=255)

                                                                         gCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGc                                               >  2:94320/1‑140 (MQ=255)

                                                                             aaGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTc                                           >  2:249740/1‑140 (MQ=255)

                                                                             aaGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTc                                           >  1:407381/1‑140 (MQ=255)

                                                                                    acaTAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACg                                    >  1:210353/1‑140 (MQ=255)

                                                                                    acaTAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACg                                    >  1:1019244/1‑140 (MQ=255)

                                                                                          cATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCAttt                              >  1:357145/1‑140 (MQ=255)

                                                                                          cATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCAttt                              >  2:644512/1‑140 (MQ=255)

                                                                                           aTCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCAtttt                             >  1:275934/1‑140 (MQ=255)

                                                                                            tCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCAttttt                            <  2:357145/140‑1 (MQ=255)

                                                                                            tCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCAttttt                            >  2:644661/1‑140 (MQ=255)

                                                                                             cGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTg                           >  1:513614/1‑140 (MQ=255)

                                                                                              gTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGc                          >  1:56920/1‑140 (MQ=255)

                                                                                              gTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGc                          <  2:210353/140‑1 (MQ=255)

                                                                                                gctgctgcAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCg                        >  2:1001379/1‑140 (MQ=255)

                                                                                                gctgctgcAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCg                        >  2:595533/1‑140 (MQ=255)

                                                                                                gctgctgcAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCg                        <  2:272067/140‑1 (MQ=255)

                                                                                                    ctgcAAACCATGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGa                    >  1:315693/1‑140 (MQ=255)

                                                                                                              tGCGCGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACggg          >  2:338195/1‑140 (MQ=255)

                                                                                                               gcgcGGTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACgggg         <  1:987869/140‑1 (MQ=255)

                                                                                                                   ggTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACGGGGcgcg     <  2:407381/140‑1 (MQ=255)

                                                                                                                   ggTTTCTTCGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACGGGGcgcg     <  2:513614/140‑1 (MQ=255)

                                                                                                                      ttcttcGATGCCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACGGGGCGCGTaa  >  1:230342/1‑140 (MQ=255)

TTGCTTTGAAGCAACGCTAAGTGAAGACCCGGATATCGCCTCACAAGCGGACGTTCGTTTTCATCTGGCGATTGCCGAAGCCTCACATAACATCGTGCTGCTGCAAACCATGCGCGGTTTCTTCGATGTCCTGCAATCCTCAGTGAAGCATAGCCGTCAGCGGATGTATCTGGTGCCACCGGTTTTTTCACAACTGACCGAACAACATCAGGCTGTCATTGACGCCATTTTTGCCGGTGATGCTGACGGGGCGCGTAA  >  NC_000913/3779443‑3779700

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