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 F1 I1 R1	81	28.9	1316934	95.8%	1261622	113.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,916,189	T→C	L378P (CTG→CCG)	barA →	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,916,189	0	T	C	100.0%	126.0 / NA	35	L378P (CTG→CCG)	barA	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (15/20); total (15/20)

GATTGAACGTTCGGCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCTGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAATCATCACTAACCTGGTGGGGAA  >  NC_000913/2916055‑2916312

gATTGAACGTTCGGCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTccgctg                                                                                                                         <  2:157778/139‑1 (MQ=255)

  ttGAACGTTCGGCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGTAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGc                                                                                                                       >  2:614273/1‑139 (MQ=255)

  ttGAACGTTCGGCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGc                                                                                                                       <  1:426412/139‑1 (MQ=255)

     aaCGTTCGGCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGcaca                                                                                                                    >  2:334528/1‑139 (MQ=255)

            ggCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATtcttct                                                                                                             <  2:214809/139‑1 (MQ=255)

             gCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTtctc                                                                                                            <  1:515310/139‑1 (MQ=255)

                    atTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATaa                                                                                                     <  1:334528/139‑1 (MQ=255)

                            gCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAg                                                                                             >  2:254813/1‑139 (MQ=255)

                                    taATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTGCTCACGATAAAGGGTTAGAACTGACg                                                                                     <  1:614273/139‑1 (MQ=255)

                                       tgatgTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTc                                                                                  <  1:392131/139‑1 (MQ=255)

                                       tgatgTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTc                                                                                  <  1:61751/139‑1 (MQ=255)

                                          tgTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAat                                                                               >  1:393674/1‑139 (MQ=255)

                                           gTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAata                                                                              >  2:526167/1‑139 (MQ=255)

                                                    ttCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCg                                                                     <  1:526167/139‑1 (MQ=255)

                                                       tcGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACg                                                                  <  1:633980/139‑1 (MQ=255)

                                                        cGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACCCACCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGt                                                                 <  1:432970/139‑1 (MQ=255)

                                                           aaCTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGcc                                                              >  1:427465/1‑139 (MQ=255)

                                                             cTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTg                                                            <  1:254813/139‑1 (MQ=255)

                                                                              gATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGAc                                           <  1:630113/139‑1 (MQ=255)

                                                                                      aaaGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCg                                   >  2:286062/1‑139 (MQ=255)

                                                                                       aaGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGa                                  <  1:624844/139‑1 (MQ=255)

                                                                                            ttccattccCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACa                             >  1:320983/1‑139 (MQ=255)

                                                                                              ccattccCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGc                           <  2:393674/139‑1 (MQ=255)

                                                                                                 ttccCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCaaa                        >  2:258965/1‑139 (MQ=255)

                                                                                                  tccCACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTACCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAat                       <  1:187420/139‑1 (MQ=255)

                                                                                                   cccACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAatc                      <  2:320983/139‑1 (MQ=255)

                                                                                                    ccACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGt                                                                                                <  1:4038/64‑1 (MQ=255)

                                                                                                    ccACTACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGt                                                                                                >  2:4038/1‑64 (MQ=255)

                                                                                                        tACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAat                       <  2:276843/133‑1 (MQ=255)

                                                                                                        tACGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAat                       >  1:276843/1‑133 (MQ=255)

                                                                                                         aCGCAGCACGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAATCATCACt                >  2:217222/1‑139 (MQ=255)

                                                                                                               caCGCTGGATGAAGTCGTTACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAATCATCACTAACCtg          >  1:329757/1‑139 (MQ=255)

                                                                                                                                ttACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCa                                                                                 >  1:612795/1‑51 (MQ=255)

                                                                                                                                ttACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCa                                                                                 <  2:612795/51‑1 (MQ=255)

                                                                                                                                ttACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAATCATCACTAACCTGGTGGGGaa  >  1:607516/1‑130 (MQ=255)

                                                                                                                                ttACTCCGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAATCATCACTAACCTGGTGGGGaa  <  2:607516/130‑1 (MQ=255)

GATTGAACGTTCGGCAAATAATTTGCTGGCAATTATTAATGATGTTCTCGACTTCTCGAAACTGGAAGCAGGTAAGCTGATTCTGGAAAGTATTCCATTCCCACTACGCAGCACGCTGGATGAAGTCGTTACTCTGCTGGCACATTCTTCTCACGATAAAGGGTTAGAACTGACGCTCAATATTAAAAGCGACGTGCCTGATAACGTGATCGGCGACCCGCTGCGATTACAGCAAATCATCACTAACCTGGTGGGGAA  >  NC_000913/2916055‑2916312

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A