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
A4 F1 I2 R1	780	68.3	3343050	93.5%	3125751	102.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,967,997	A→G	L146L (CTT→CTC)	ptsP ←	PEP‑protein phosphotransferase enzyme I, GAF domain containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,967,997	0	A	G	100.0%	207.3 / NA	58	L146L (CTT→CTC)	ptsP	PEP‑protein phosphotransferase enzyme I, GAF domain containing protein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (26/32); total (26/32)

TAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCAAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGT  >  NC_000913/2967862‑2968120

tAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGc                                                                                                                          <  2:319067/139‑1 (MQ=255)

  aCGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGt                                                                                                                        <  1:862090/139‑1 (MQ=255)

    gTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCa                                                                                                                      <  1:514023/139‑1 (MQ=255)

         aTCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCagg                                                                                                                 <  1:26237/139‑1 (MQ=255)

             tGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCaggaagg                                                                                                             >  2:76880/1‑139 (MQ=255)

                  gCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGAttct                                                                                                        <  1:193497/139‑1 (MQ=255)

                       cGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACt                                                                                                   >  1:1112645/1‑139 (MQ=255)

                         gCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACttt                                                                                                 <  2:1112645/139‑1 (MQ=255)

                            tgataaacatCAGGTGCGGCAGGTAATACGCGGATTCGCGTCTGCCGATATTGCACAAACACGGCAGTCAACTGCGACTGAGACAGAATAGCGGCCATCTGGGCGGCGGGCGCCACCCGGAAGGATGCGTCACTTTCGt                                                                                              <  1:406463/133‑1 (MQ=255)

                                    acCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGACATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTgg                                                                                      >  2:1105268/1‑139 (MQ=255)

                                       agctgctgcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGgcgc                                                                                   <  1:1105268/136‑1 (MQ=255)

                                        ggTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGt                                                                                                                        >  1:1068559/1‑101 (MQ=255)

                                        ggTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGt                                                                                                                        <  2:1068559/101‑1 (MQ=255)

                                        ggTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGACAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCa                                                                                  >  1:962105/1‑139 (MQ=255)

                                         gTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATa                                                                                          >  2:1252565/1‑130 (MQ=255)

                                         gTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGACCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATa                                                                                          <  1:1252565/130‑1 (MQ=255)

                                          tgctacCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAAc                                                                                >  1:1148267/1‑139 (MQ=255)

                                           gctgcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAAct                                                                               >  2:1352617/1‑139 (MQ=255)

                                              gcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCa                                                                                                                      <  2:885344/97‑1 (MQ=255)

                                              gcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCa                                                                                                                      >  1:885344/1‑97 (MQ=255)

                                               ccGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACt                                                                                                   <  2:75406/115‑1 (MQ=255)

                                               ccGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACt                                                                                                   >  1:75406/1‑115 (MQ=255)

                                                          cgGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGc                                                                       >  1:160926/1‑132 (MQ=255)

                                                          cgGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGc                                                                       <  2:160926/132‑1 (MQ=255)

                                                            gATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTaccacc                                                              <  1:376576/139‑1 (MQ=255)

                                                                cgcgTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGCCGCAACTCTCGTTGCTGTACCACCAGTa                                                          <  2:1035545/139‑1 (MQ=255)

                                                                       ggCGATATTGCTCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATa                                                                                          <  2:1061041/100‑1 (MQ=255)

                                                                       ggCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATa                                                                                          >  1:1061041/1‑100 (MQ=255)

                                                                              ttGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTgg                                            <  2:1443864/139‑1 (MQ=255)

                                                                                   cAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGt                                                                          <  1:83026/104‑1 (MQ=255)

                                                                                   cAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGt                                                                          >  2:83026/1‑104 (MQ=255)

                                                                                   cAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACg                                       >  1:1274249/1‑139 (MQ=255)

                                                                                    aaaCAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGt                                      <  2:1274249/139‑1 (MQ=255)

                                                                                          ggCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGgcg                                                                                    <  1:1472389/87‑1 (MQ=255)

                                                                                          ggCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGgcg                                                                                    >  2:1472389/1‑87 (MQ=255)

                                                                                               tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTc                                                                                                                       <  1:143424/47‑1 (MQ=255)

                                                                                               tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTc                                                                                                                       >  2:143424/1‑47 (MQ=255)

                                                                                               tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGtt                                                                         <  2:906808/93‑1 (MQ=255)

                                                                                               tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGtt                                                                         >  1:906808/1‑93 (MQ=255)

                                                                                               tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                  >  2:464302/1‑100 (MQ=255)

                                                                                               tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                  <  1:464302/100‑1 (MQ=255)

                                                                                                  aCTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGCTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTAc                        <  2:962105/139‑1 (MQ=255)

                                                                                                        aCTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGt                          >  1:60696/1‑131 (MQ=255)

                                                                                                        aCTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGt                          <  2:60696/131‑1 (MQ=255)

                                                                                                             gaaagaaTAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCg                                                                           >  2:1124904/1‑77 (MQ=255)

                                                                                                             gaaagaaTAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCg                                                                           <  1:1124904/77‑1 (MQ=255)

                                                                                                             gaaagaaTAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAAcg             <  1:76880/139‑1 (MQ=255)

                                                                                                             gaaagaaTAGCTGCCATCTGGGTGACGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCg                                          <  1:607/110‑1 (MQ=255)

                                                                                                             gaaagaaTAGCTGCCATCTGGGTGACGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCg                                          >  2:607/1‑110 (MQ=255)

                                                                                                                      gCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATa                                                                                          >  2:1439015/1‑53 (MQ=255)

                                                                                                                      gCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATa                                                                                          <  1:1439015/53‑1 (MQ=255)

                                                                                                                       cTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGt                                                                                              >  2:377293/1‑48 (MQ=255)

                                                                                                                       cTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGt                                                                                              <  1:377293/48‑1 (MQ=255)

                                                                                                                        tGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGt  >  2:381909/1‑139 (MQ=255)

                                                                                                                            aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGgcg                                                                                    >  2:1670617/1‑53 (MQ=255)

                                                                                                                            aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGgcg                                                                                    <  1:1670617/53‑1 (MQ=255)

                                                                                                                            aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                  <  2:93600/71‑1 (MQ=255)

                                                                                                                            aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                  >  1:93600/1‑71 (MQ=255)

TAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCAAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGT  >  NC_000913/2967862‑2968120

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A