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
A3 F1 I1 R1	781	46.9	2231650	93.5%	2086592	109.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,477,170	G→A	Q84* (CAG→TAG)	fkpA ←	FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,477,170	0	G	A	100.0%	128.1 / NA	40	Q84* (CAG→TAG)	fkpA	FKBP‑type peptidyl‑prolyl cis‑trans isomerase (rotamase)
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/19); total (21/19)

CCTTTTGCTTCGTTATCAGCCGCGTCTTTTTCCATCTTCGCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTGAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCATAAGCTGATTTCTGATCGTCATTTTTGAACG  >  NC_000913/3477037‑3477301

ccTTTTGCTTCGTTATCAGCCGCGTCTTTTTCCATCTTCGCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAacac                                                                                                                                <  1:72350/139‑1 (MQ=255)

    ttGCTTCGTTATCAGCCGCGTCTTTTTCCATCTTCGCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGc                                                                                                                            >  2:328457/1‑139 (MQ=255)

                                      cGCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCt                                                                                                                    <  2:988454/113‑1 (MQ=255)

                                      cGCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCt                                                                                                                    >  1:988454/1‑113 (MQ=255)

                                       gCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATGCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGtt                                                                                         >  1:663500/1‑139 (MQ=255)

                                            aGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGAt                                                                                                                         >  2:538131/1‑102 (MQ=255)

                                            aGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGAt                                                                                                                         <  1:538131/102‑1 (MQ=255)

                                                      ttCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTa                                                                          >  1:629808/1‑139 (MQ=255)

                                                      ttCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTa                                                                          >  2:906852/1‑139 (MQ=255)

                                                      ttCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTa                                                                          >  2:939768/1‑139 (MQ=255)

                                                        cACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTaga                                                                        <  2:629808/139‑1 (MQ=255)

                                                                cTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTc                                                                >  1:382650/1‑139 (MQ=255)

                                                                  tCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCa                                                              <  2:382650/139‑1 (MQ=255)

                                                                                  tCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCt                                                                                                                    >  2:284355/1‑69 (MQ=255)

                                                                                  tCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCt                                                                                                                    <  1:284355/69‑1 (MQ=255)

                                                                                  tCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATc                                                                                                                >  2:896977/1‑73 (MQ=255)

                                                                                  tCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATc                                                                                                                <  1:896977/73‑1 (MQ=255)

                                                                                  tCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGa                                              >  2:128268/1‑139 (MQ=255)

                                                                                   cTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAg                                             >  1:266313/1‑139 (MQ=255)

                                                                                    tGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTagag                                                                       >  1:552140/1‑112 (MQ=255)

                                                                                    tGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTagag                                                                       <  2:552140/112‑1 (MQ=255)

                                                                                     gTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGTGTTTTCCATGTAACGACCCAGCGAGGc                                           <  2:663500/139‑1 (MQ=255)

                                                                                     gTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGc                                           <  1:51900/139‑1 (MQ=255)

                                                                                      ttCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGccc                                                                                             <  1:1089697/88‑1 (MQ=255)

                                                                                      ttCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGccc                                                                                             >  2:1089697/1‑88 (MQ=255)

                                                                                      ttCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGttttt                                                                                      >  1:384739/1‑95 (MQ=255)

                                                                                      ttCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGttttt                                                                                      <  2:384739/95‑1 (MQ=255)

                                                                                          aTCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGt                                                                                          <  2:575730/87‑1 (MQ=255)

                                                                                          aTCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGt                                                                                          >  1:575730/1‑87 (MQ=255)

                                                                                          aTCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCa                                      <  2:299679/139‑1 (MQ=255)

                                                                                              ctTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGc                                  >  2:406339/1‑139 (MQ=255)

                                                                                                tGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCAt                                >  2:61648/1‑139 (MQ=255)

                                                                                                   tCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCATAAg                             <  2:180135/139‑1 (MQ=255)

                                                                                                                   tATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCATAAg                             >  1:622770/1‑123 (MQ=255)

                                                                                                                   tATCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCATAAg                             <  2:622770/123‑1 (MQ=255)

                                                                                                                    aTCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATg                                                                                                >  2:860394/1‑55 (MQ=255)

                                                                                                                    aTCAGCAAATGCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATg                                                                                                <  1:860394/55‑1 (MQ=255)

                                                                                                                              gCATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCATAAGCTGATTTCTGATCGTCATTTTTGAACg  <  1:906852/139‑1 (MQ=255)

                                                                                                                               cATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTaa                                                         >  2:660156/1‑83 (MQ=255)

                                                                                                                               cATCCTAAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTaa                                                         <  1:660156/83‑1 (MQ=255)

CCTTTTGCTTCGTTATCAGCCGCGTCTTTTTCCATCTTCGCCTGAGCAGAAGACTTCACGCGAGCTTCGAATGCTTGTAGAGTCTGTTCGATCTCTTGGTCGGAGAGTTTGCTCTTATCAGCAAATGCATCCTGAACACCAGCGATCAGCTGATCTTTATCCAGTTTGATGCCCAGTTTTTCTTGTTCTTTTAGAGAGTTTTCCATGTAACGACCCAGCGAGGCACCCAGTGCATAAGCTGATTTCTGATCGTCATTTTTGAACG  >  NC_000913/3477037‑3477301

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A