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 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

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%	160.6 / NA	46	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 (23/23); total (23/23)

GTAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCAAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGTTCTT  >  NC_000913/2967861‑2968124

gTAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAg                                                                                                                               <  1:886801/139‑1 (MQ=255)

 tAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGACAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGc                                                                                                                              <  2:819132/139‑1 (MQ=255)

  aaCGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCTCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCg                                                                                                                             >  2:898182/1‑139 (MQ=255)

    cGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTc                                                                                                                           >  2:529753/1‑139 (MQ=255)

    cGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTc                                                                                                                           >  1:674290/1‑139 (MQ=255)

        gCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCa                                                                                                                          >  2:64440/1‑136 (MQ=255)

        gCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCa                                                                                                                          <  1:64440/136‑1 (MQ=255)

                ccAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCTCGTCTGGCGATATTGTCCAAACAAGGCAGTCAACTGACACTGATAAAGAATAGCCGCCATCTGGGTGACGAAGGTCACCCAGAAGGAt                                                                                                               >  2:701523/1‑139 (MQ=255)

                    ccTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGAttctt                                                                                                           <  1:804087/139‑1 (MQ=255)

                              tCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGt                                                                                                  >  2:736323/1‑138 (MQ=255)

                              tCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGt                                                                                                  <  1:736323/138‑1 (MQ=255)

                                               gcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAActct                                                                                 >  2:838081/1‑138 (MQ=255)

                                               gcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAActct                                                                                 <  1:838081/138‑1 (MQ=255)

                                               gcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACtctc                                                                                >  1:658380/1‑139 (MQ=255)

                                               gcCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACtctc                                                                                <  1:898182/139‑1 (MQ=255)

                                                   gTAATGCGCGGATTCGCGTCTGGCGATGTTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCACAACTCTCGTTg                                                                            >  2:554564/1‑139 (MQ=255)

                                                         cgcgGATTCGCGTCTGGCGATATTGCCCAAACAAGACAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACttt                                                                                                     >  2:755008/1‑108 (MQ=255)

                                                         cgcgGATTCGCGTCTGGCGATATTGCCCAAACAAGACAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACttt                                                                                                     <  1:755008/108‑1 (MQ=255)

                                                         cgcgGATTCGCGTCTGGCGATATTGCCCAAAAAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                      <  1:701523/139‑1 (MQ=255)

                                                                                  cccAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGa                                             >  2:197220/1‑139 (MQ=255)

                                                                                  cccAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGa                                             >  1:225431/1‑139 (MQ=255)

                                                                                     aaaCAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGt                                          <  1:529753/139‑1 (MQ=255)

                                                                                      aaCAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAg                                                                                                                               <  1:215027/53‑1 (MQ=255)

                                                                                      aaCAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAg                                                                                                                               >  2:215027/1‑53 (MQ=255)

                                                                                           ggCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGaata                                    <  2:674290/139‑1 (MQ=255)

                                                                                            gCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTa                                                              >  1:432821/1‑112 (MQ=255)

                                                                                            gCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTa                                                              <  2:432821/112‑1 (MQ=255)

                                                                                                tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCAcc                                                                                                                        <  1:749813/50‑1 (MQ=255)

                                                                                                tCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCAcc                                                                                                                        >  2:749813/1‑50 (MQ=255)

                                                                                                 cAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                      >  2:646252/1‑99 (MQ=255)

                                                                                                 cAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                      <  1:646252/99‑1 (MQ=255)

                                                                                                 cAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGt                              <  2:752957/139‑1 (MQ=255)

                                                                                                     tGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGc                          >  1:249599/1‑139 (MQ=255)

                                                                                                              gaaagaaTAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATAc                                                                                             <  2:868560/63‑1 (MQ=255)

                                                                                                              gaaagaaTAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATAc                                                                                             >  1:868560/1‑63 (MQ=255)

                                                                                                                aagaaTAGCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAAcgcg               <  2:225431/139‑1 (MQ=255)

                                                                                                                       gCTGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAAc        >  2:507234/1‑139 (MQ=255)

                                                                                                                         tGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACt                                                                                                       <  2:907672/42‑1 (MQ=255)

                                                                                                                         tGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACt                                                                                                       >  1:907672/1‑42 (MQ=255)

                                                                                                                         tGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGtt                                                                             >  2:423091/1‑68 (MQ=255)

                                                                                                                         tGCCATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGtt                                                                             <  1:423091/68‑1 (MQ=255)

                                                                                                                           ccATCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGttc    <  1:853471/139‑1 (MQ=255)

                                                                                                                             aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                      >  2:375643/1‑71 (MQ=255)

                                                                                                                             aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTac                                                                      <  1:375643/71‑1 (MQ=255)

                                                                                                                             aTCTGGGTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGttctt  >  1:478132/1‑139 (MQ=255)

                                                                                                                                  ggTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGc                                                                           <  2:466153/61‑1 (MQ=255)

                                                                                                                                  ggTGGCGAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGc                                                                           >  1:466153/1‑61 (MQ=255)

GTAACGTGGCATCCTGCCAGCCTTCGGCAATCGCCACACCAGGTGCTGCCGGTAATGCGCGGATTCGCGTCTGGCGATATTGCCCAAACAAGGCAGTCAACTGCGACTGAGAAAGAATAGCTGCCATCTGGGTGGCAAGCGTCACCAGGAAGGATTCTTCACTTTCGTCATACTGGCGCAACTCTCGTTGCTGTACCACCAGTACACCAAGCAACTGGCGACGTTGAATAATTGGTACGCCTAAAAACGCGCGGAAACGTTCTT  >  NC_000913/2967861‑2968124

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