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
A5 F1 I1 R1	770	51.4	2439994	93.8%	2288714	110.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	371,542	C→T	Q102* (CAA→TAA)	mhpC →	2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	371,542	0	C	T	100.0%	112.2 / NA	36	Q102* (CAA→TAA)	mhpC	2‑hydroxy‑6‑ketonona‑2,4‑dienedioic acid hydrolase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (21/15); total (21/15)

CTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATCAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAGT  >  NC_000913/371419‑371673

cTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGTGTGGTGGATTAACTGGATATCGCCa                                                                                                                       >  2:1169025/1‑139 (MQ=255)

   gTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCaaaa                                                                                                                    >  1:898675/1‑139 (MQ=255)

             gCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCTCctgct                                                                                                          >  1:405700/1‑139 (MQ=255)

                 tCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGc                                                                                                      <  1:252543/139‑1 (MQ=255)

                           ctgctgGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑gg                                                                                           >  1:736695/1‑139 (MQ=255)

                             gctgGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑gggg                                                                                         <  2:898675/139‑1 (MQ=255)

                                    tGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAAGAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATa                                                                                  <  2:736695/139‑1 (MQ=255)

                                      tCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGt                                                                                >  2:304500/1‑139 (MQ=255)

                                                ggCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGt                                                                      >  1:850689/1‑139 (MQ=255)

                                                 gCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGtt                                                                     <  2:850689/139‑1 (MQ=255)

                                                 gCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGtt                                                                     <  2:767336/139‑1 (MQ=255)

                                                  cAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGTGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTc                                                                    <  1:1169025/139‑1 (MQ=255)

                                                    agagCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCAc                                                                  <  1:304500/139‑1 (MQ=255)

                                                                          tGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGtt                                                                     <  2:224337/114‑1 (MQ=255)

                                                                          tGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGtt                                                                     >  1:224337/1‑114 (MQ=255)

                                                                            gTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATACACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCgg                                          >  2:760884/1‑139 (MQ=255)

                                                                                gcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTaaa                                                           <  2:1062368/118‑1 (MQ=255)

                                                                                gcgATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTaaa                                                           >  1:1062368/1‑118 (MQ=255)

                                                                                    tCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGtt                                                                     <  1:437829/104‑1 (MQ=255)

                                                                                    tCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGtt                                                                     >  2:437829/1‑104 (MQ=255)

                                                                                            tAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTg                                   >  1:332837/1‑130 (MQ=255)

                                                                                            tAATGCACGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTg                                   <  2:332837/130‑1 (MQ=255)

                                                                                                  aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCa                                                                                                                >  2:1022158/1‑48 (MQ=255)

                                                                                                  aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCa                                                                                                                <  1:1022158/48‑1 (MQ=255)

                                                                                                  aCGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGggcggc                    >  2:912147/1‑139 (MQ=255)

                                                                                                  aCGAATCCTGAAAAGCGTGGTGGAGTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGggcggc                    >  1:303808/1‑139 (MQ=255)

                                                                                                   cGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑g                                                                                            <  2:1137840/66‑1 (MQ=255)

                                                                                                   cGAATCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑g                                                                                            >  1:1137840/1‑66 (MQ=255)

                                                                                                      aTCCTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTa                <  1:912147/139‑1 (MQ=255)

                                                                                                        ccTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACg              >  1:1097654/1‑139 (MQ=255)

                                                                                                         cTGAAAAGCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACgg             >  2:844175/1‑139 (MQ=255)

                                                                                                                gCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACggg            >  1:905536/1‑133 (MQ=255)

                                                                                                                gCGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACggg            <  2:905536/133‑1 (MQ=255)

                                                                                                                 cGTGGTGGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGATGGGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCAt      >  1:1063509/1‑139 (MQ=255)

                                                                                                                  gtggtgGATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGa    >  2:1193197/1‑139 (MQ=255)

                                                                                                                    ggtggATTAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAgt  >  2:198927/1‑139 (MQ=255)

CTGGTAGAGGCGGGCTATCGGGTGATCCTGCTGGATTGTCCGGGTTGGGGCAAGAGCGATTCGGTCGTTAATAGTGGTTCGCGATCGGATCTTAATGCACGAATCCTGAAAAGCGTGGTGGATCAACTGGATATCGCCAAAATCCACCTGCTGGGCAACTCGAT‑GGGGGGCCATAGTTCTGTGGCGTTCACCCTTAAATGGCCGGAGCGCGTCGGCAAACTGGTGCTGATGGGCGGCGGTACGGGCGGCATGAGT  >  NC_000913/371419‑371673

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 25 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A