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
A10 F1 I1 R1	77	35.1	1569012	96.6%	1515665	112.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	638,619	A→G	intergenic (‑46/‑326)	dsbG ← / → ahpC	thiol:disulfide interchange protein, periplasmic/alkyl hydroperoxide reductase, C22 subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	638,619	0	A	G	100.0%	133.3 / NA	36	intergenic (‑46/‑326)	dsbG/ahpC	thiol:disulfide interchange protein, periplasmic/alkyl hydroperoxide reductase, C22 subunit
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (16/20); total (16/20)

CTGTTTTTCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAACCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCATGTCGTTGTTGCATTTGTAAGGGCAACACCTCAGCCTGCAGGCAGGCA  >  NC_000913/638484‑638736

ctctttttCAACCGCTATTACTGGTGCAGGATGTCGCTCTGCGCAGGCGCTTGCAGTAATCAGAGCCAGTAAATGTCTCTTTTTTACCATGAATTTGTCCTTTTCAGTCCGTGCACAAGTCGAGTAAAAGGCATAGCCt                                                                                                                    >  2:582778/4‑139 (MQ=255)

cTGTTTTTCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCt                                                                                                                    >  2:323201/1‑139 (MQ=255)

 tGTTTTTCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGTGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCACAAGTCGAGTAAAAGGCATAGCCTa                                                                                                                   >  2:537400/1‑139 (MQ=255)

 tGTTTTTCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTa                                                                                                                   >  1:246842/1‑139 (MQ=255)

    ttttCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCa                                                                                                                <  1:490534/139‑1 (MQ=255)

    ttttCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCa                                                                                                                <  1:705621/139‑1 (MQ=255)

    ttttCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCa                                                                                                                <  1:607776/139‑1 (MQ=255)

             gCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAg                                                                                                       >  2:402997/1‑139 (MQ=255)

             gCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAg                                                                                                       >  2:609476/1‑139 (MQ=255)

                tttACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTa                                                                                                    <  2:588865/139‑1 (MQ=255)

                 ttACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTaa                                                                                                   <  1:323201/139‑1 (MQ=255)

                 ttACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTaa                                                                                                   <  1:402997/139‑1 (MQ=255)

                   aCTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCa                                                                                                                <  2:272436/124‑1 (MQ=255)

                   aCTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCa                                                                                                                >  1:272436/1‑124 (MQ=255)

                     tGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGc                                                                                               <  1:609476/139‑1 (MQ=255)

                         gCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAg                                                                                           >  2:604002/1‑139 (MQ=255)

                            ggAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGt                                                                                                     <  1:256081/126‑1 (MQ=255)

                            ggAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGt                                                                                                     >  2:256081/1‑126 (MQ=255)

                                         cGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCt                                                                           <  2:36180/139‑1 (MQ=255)

                                         cGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCt                                                                           <  2:246842/139‑1 (MQ=255)

                                                     cAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAgg                                                               <  1:52411/139‑1 (MQ=255)

                                                        gAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGgtg                                                            <  1:620001/139‑1 (MQ=255)

                                                               agCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTAt                                                                   <  2:471259/125‑1 (MQ=255)

                                                               agCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTAt                                                                   >  1:471259/1‑125 (MQ=255)

                                                               agCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAAt                                                     >  2:25774/1‑139 (MQ=255)

                                                                gCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCtt                                                                          >  2:145644/1‑117 (MQ=255)

                                                                gCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCtt                                                                          <  1:145644/117‑1 (MQ=255)

                                                                  cAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCa                                                  >  2:459581/1‑139 (MQ=255)

                                                                    gTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGt                                                                                                     >  2:758903/1‑86 (MQ=255)

                                                                    gTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGt                                                                                                     <  1:758903/86‑1 (MQ=255)

                                                                                                 tCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCATGTCGTTGTTGCATTTGTAAGGGCAACACCt                   <  1:604002/139‑1 (MQ=255)

                                                                                                               tGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCtt                                                                          >  2:176144/1‑70 (MQ=255)

                                                                                                               tGCAAAAGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCtt                                                                          <  1:176144/70‑1 (MQ=255)

                                                                                                                  aaaaGTCGAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCATGTCGTTGTTGCATTTGTAAGGGCAACACCTCAGCCTGCAggcaggca  <  1:25774/139‑1 (MQ=255)

                                                                                                                         gAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCATGTCGTTGTTGCATTTGTAAGGGCAACACCt                   >  1:704862/1‑115 (MQ=255)

                                                                                                                         gAGTAAAAGGCATAGCCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCATGTCGTTGTTGCATTTGTAAGGGCAACACCt                   <  2:704862/115‑1 (MQ=255)

CTGTTTTTCAATCGCTTTTACTGGAGCAGGAAGTTCCTCTGCGAAGGCGATTGCAGGAAGCAGAGCCAGTAAAAGTATCTTTTTTAACATTAATTTGTCCTTTTCAGTCAGTGCAAAAGTCGAGTAAAAGGCATAACCTATCACTGTCATAGGTAAGAGCTTAGATCAGGTGATTGCCCTTTGTTTATGAGGGTGTTGTAATCCATGTCGTTGTTGCATTTGTAAGGGCAACACCTCAGCCTGCAGGCAGGCA  >  NC_000913/638484‑638736

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `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