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	81	47.9	2225048	94.8%	2109345	113.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,959,758	A→G	L19P (CTG→CCG)	ppiC ←	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,959,758	0	A	G	100.0%	203.2 / NA	53	L19P (CTG→CCG)	ppiC	peptidyl‑prolyl cis‑trans isomerase C (rotamase C)
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (25/28); total (25/28)

TTATCGAACGCCGGAACCATCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCAGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTGTCAGTC  >  NC_000913/3959623‑3959887

ttATCGAACGCCGGAACCATCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCggag                                                                                                                                >  2:38934/1‑139 (MQ=255)

  aTCGAACGCCGGAACCATCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGcc                                                                                                                              <  1:944486/139‑1 (MQ=255)

         gCCGGAACCATCTGACCCTGGCGGAATTCACCTAAATCACCGCCACGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTtct                                                                                                                       <  2:728055/139‑1 (MQ=255)

          ccGGAACCATCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTtctc                                                                                                                      <  1:38934/139‑1 (MQ=255)

                  aTCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              <  2:962478/139‑1 (MQ=255)

                  aTCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              <  1:601264/139‑1 (MQ=255)

                  aTCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              <  1:415637/139‑1 (MQ=255)

                   tCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              >  2:294556/1‑138 (MQ=255)

                   tCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              <  1:294556/138‑1 (MQ=255)

                   tCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTAc                                                                                                             >  1:686026/1‑139 (MQ=255)

                           tGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGatat                                                                                                     >  1:355535/1‑139 (MQ=255)

                             gCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGc                                                                                                   >  2:238574/1‑139 (MQ=255)

                                 aaTTCACCTCAAGCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCCGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTCCTTTTACAAGGATATGCCGtg                                                                                               >  1:209086/1‑139 (MQ=255)

                                  aTTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGtgc                                                                                              >  1:94679/1‑139 (MQ=255)

                                      aCCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              >  2:482603/1‑119 (MQ=255)

                                      aCCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTa                                                                                                              <  1:482603/119‑1 (MQ=255)

                                      aCCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGtgctgct                                                                                          >  1:424501/1‑139 (MQ=255)

                                            aTCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGtt                                                                                    <  1:141002/139‑1 (MQ=255)

                                                 cgccgcGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGCAATCGGCCCCTTTCTTAATCTGCTCGAGAAGATCCGGCGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGc                                                                               >  1:249508/1‑139 (MQ=255)

                                                 cgccgcGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTAc                                                                                                             <  1:285137/109‑1 (MQ=255)

                                                 cgccgcGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTAc                                                                                                             >  2:285137/1‑109 (MQ=255)

                                                   ccgcGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCa                                                                             <  2:424501/139‑1 (MQ=255)

                                                   ccgcGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCa                                                                             <  2:383685/139‑1 (MQ=255)

                                                    cgcgTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCAt                                                                            >  1:133857/1‑139 (MQ=255)

                                                     gcgTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGc                                                                                                                               >  1:1077813/1‑87 (MQ=255)

                                                     gcgTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGc                                                                                                                               <  2:1077813/87‑1 (MQ=255)

                                                             cTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGcc                                                                   <  2:94679/139‑1 (MQ=255)

                                                             cTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGcc                                                                   <  2:1031612/139‑1 (MQ=255)

                                                               gATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCtt                                                                 <  1:255784/139‑1 (MQ=255)

                                                                 tGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGa                                                               <  1:238574/139‑1 (MQ=255)

                                                                     cAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGa                                                           >  2:1087117/1‑139 (MQ=255)

                                                                                  tcttcGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACa                                                                                                            <  1:649053/77‑1 (MQ=255)

                                                                                  tcttcGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACa                                                                                                            >  2:649053/1‑77 (MQ=255)

                                                                                  tcttcGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAggc                                              >  1:470513/1‑139 (MQ=255)

                                                                                    ttcGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAggcgg                                            <  2:249508/139‑1 (MQ=255)

                                                                                      cGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGcc                                                                                                                              <  1:502658/55‑1 (MQ=255)

                                                                                      cGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGcc                                                                                                                              >  2:502658/1‑55 (MQ=255)

                                                                                          aGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGAttt                                      >  2:40435/1‑139 (MQ=255)

                                                                                            cTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTtc                                                                                                                        >  1:129306/1‑55 (MQ=255)

                                                                                            cTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTtc                                                                                                                        <  2:129306/55‑1 (MQ=255)

                                                                                               gCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCa                                 <  1:351594/139‑1 (MQ=255)

                                                                                                   aaaTCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGAt                             <  1:126190/139‑1 (MQ=255)

                                                                                                   aaaTCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGAt                             <  2:355535/139‑1 (MQ=255)

                                                                                                             cGTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGc                   <  2:336106/139‑1 (MQ=255)

                                                                                                              gTTCTTAATCTGCTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCt                  >  2:229104/1‑139 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCt                                                                  >  2:201592/1‑79 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCt                                                                  <  1:201592/79‑1 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAggcgg                                            >  1:163876/1‑101 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAggcgg                                            <  2:163876/101‑1 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTgtc      >  1:297145/1‑139 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTgtc      >  2:600234/1‑139 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTgtc      >  1:493277/1‑139 (MQ=255)

                                                                                                                          cTCGAGAAGATCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTgtc      >  1:672559/1‑139 (MQ=255)

                                                                                                                              agaagaTCCGGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTgtcagtc  <  2:508499/139‑1 (MQ=255)

TTATCGAACGCCGGAACCATCTGACCCTGGCGGAATTCACCTAAATCACCGCCGCGTTTGCCTGATGGGCAAATGGAGTGTTTCTTCGCCAGCTTGCCGAAATCGGCCCCGTTCTTAATCTGCTCGAGAAGATCCAGAGCCAGTTTCTCTTCTTTTACAAGGATATGCAGTGCTGCTGCTGTTTTTGCCATGATCGTGCCTTGAGTGAATAATTGTCAGGCGGCGATTTTAGCATGATCCGCAGATGCTAACGTAATTGTCAGTC  >  NC_000913/3959623‑3959887

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