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	1,667,344	T→C	407 (TAA→TAG)	mlc ←	glucosamine anaerobic growth regulon transcriptional repressor, autorepressor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,667,344	0	T	C	100.0%	131.6 / NA	36	407 (TAA→TAG)	mlc	glucosamine anaerobic growth regulon transcriptional repressor, autorepressor
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (18/18); total (18/18)

GCATCACTAACTCCACCGTTATGCTTCACAAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGTTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGCTGACTATACGCAGGAAGGGC  >  NC_000913/1667216‑1667478

gCATCACTAACTCCACCGTTATGCTTCACAAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCa                                                                                                                              <  2:371663/139‑1 (MQ=255)

   tCACTAACTCCACCGTTATGCTTCACAAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACa                                                                                                                           >  1:13645/1‑139 (MQ=255)

                  ttATGCTTCACAAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAg                                                                                                            <  2:468645/139‑1 (MQ=255)

                    aTGCTTCACAAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGaa                                                                                                          <  2:13645/139‑1 (MQ=255)

                          cacaAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGaa                                                                                                          >  2:58132/1‑133 (MQ=255)

                          cacaAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGaa                                                                                                          <  1:58132/133‑1 (MQ=255)

                                 ataAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATcg                                                                                             >  2:368379/1‑139 (MQ=255)

                                    aaCCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGa                                                                                                                         <  1:130021/108‑1 (MQ=255)

                                    aaCCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGa                                                                                                                         >  2:130021/1‑108 (MQ=255)

                                          gAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTa                                                                                    >  2:133415/1‑139 (MQ=255)

                                                     aCCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAgcg                                                                         >  1:693015/1‑139 (MQ=255)

                                                        ttGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAg                                                                                                            >  2:734926/1‑101 (MQ=255)

                                                        ttGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAg                                                                                                            <  1:734926/101‑1 (MQ=255)

                                                                   aGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGcc                                                           <  1:598743/139‑1 (MQ=255)

                                                                         gCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGtt                                                     >  1:554490/1‑139 (MQ=255)

                                                                         gCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGtt                                                     >  2:186545/1‑139 (MQ=255)

                                                                                  gCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTg                                            >  2:383829/1‑139 (MQ=255)

                                                                                      aaaTTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTa                                        <  1:133415/139‑1 (MQ=255)

                                                                                       aaTTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGt                                         <  1:283577/137‑1 (MQ=255)

                                                                                       aaTTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGt                                         >  2:283577/1‑137 (MQ=255)

                                                                                                  cgcAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTg                            >  1:696038/1‑139 (MQ=255)

                                                                                                  cgcAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTg                            >  1:711510/1‑139 (MQ=255)

                                                                                                    cAAATTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGAt                          <  1:383829/139‑1 (MQ=255)

                                                                                                      aaTTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGt                                         >  2:290050/1‑122 (MQ=255)

                                                                                                      aaTTTTGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGt                                         <  1:290050/122‑1 (MQ=255)

                                                                                                        ttttGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGc                      <  2:497517/139‑1 (MQ=255)

                                                                                                        ttttGGTAGAACAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGc                      <  2:696038/139‑1 (MQ=255)

                                                                                                                 aaCAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGAt                          <  2:293066/126‑1 (MQ=255)

                                                                                                                 aaCAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGAt                          >  1:293066/1‑126 (MQ=255)

                                                                                                                  aCAGTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGCTGACTATACg            <  2:693015/139‑1 (MQ=255)

                                                                                                                     gTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATcg                                                                                             <  2:307205/55‑1 (MQ=255)

                                                                                                                     gTTAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATcg                                                                                             >  1:307205/1‑55 (MQ=255)

                                                                                                                      ttAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTa                                        <  2:572784/107‑1 (MQ=255)

                                                                                                                      ttAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTa                                        >  1:572784/1‑107 (MQ=255)

                                                                                                                      ttAAAAAATGCTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGCTGACTATACGCAgg        >  1:423707/1‑139 (MQ=255)

                                                                                                                            aaTGCTAGCCCGGCACCAGACGAATCAGCAGCGAACCGTTATACATCGCGTCTTTTACCAGGGCAGCGCCTGCCATCGAGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGCTGACGATACGCAGGAAGGGc  <  2:233525/139‑1 (MQ=255)

GCATCACTAACTCCACCGTTATGCTTCACAAATATAAACCAGGAAAATAATTAACCTTGAAAGTCTAAGTTATGCTTTCCTGGCCCAAATTGAGATAGCGCAAATTTTGGTAGAACAGTTAAAAAATGTTAACCCTGCAACAGACGAATCAACAAAGAACCGTTATACATCGCGTCTTTTACCAGTGCAGCGCCTGCCATCGTGCCCTGGTTAGAAAACTGAGTACTCTCAACGCTGATGTGCTGACTATACGCAGGAAGGGC  >  NC_000913/1667216‑1667478

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