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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,309,007	G→A	intergenic (‑83/+26)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,309,007	0	G	A	100.0%	114.8 / NA	37	intergenic (‑83/+26)	nlpI/pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (18/19); total (18/19)

CAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGCCCCCCGCCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGG  >  NC_000913/3308876‑3309120

cAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCg                                                                                                           >  1:670771/1‑139 (MQ=255)

           gCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATg                                                                                                <  2:370220/139‑1 (MQ=255)

            cTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                               <  1:636933/139‑1 (MQ=255)

             tGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGTCCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGc                                                                                              >  1:716630/1‑139 (MQ=255)

               tCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAAt                                                                                                 <  2:303009/134‑1 (MQ=255)

               tCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAAt                                                                                                 >  1:303009/1‑134 (MQ=255)

               tCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCaa                                                                                            >  2:343411/1‑139 (MQ=255)

                cGCAACGAACCACAAGCGCAACAAAGGCTGCAATTCCCACTCCCGAGAACCACGGTTGAATGACCGGCCTGTACCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCGCCACCGCAGCGGAGGGCAAACGGCAAc                                                                                           <  1:767259/139‑1 (MQ=255)

                         acacCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGc                                                                                  >  1:242475/1‑139 (MQ=255)

                          cacCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGcc                                                                                 <  2:674543/139‑1 (MQ=255)

                                cgcAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                               >  1:115873/1‑119 (MQ=255)

                                cgcAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                               <  2:115873/119‑1 (MQ=255)

                                          gCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGa                                                                 >  2:481945/1‑139 (MQ=255)

                                                        tCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGtgctgc                                                   >  1:218897/1‑139 (MQ=255)

                                                         cccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgca                                                  >  1:408281/1‑139 (MQ=255)

                                                         cccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgca                                                  >  1:139366/1‑139 (MQ=255)

                                                          ccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgcag                                                 <  1:307774/139‑1 (MQ=255)

                                                          ccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgcag                                                 <  2:408281/139‑1 (MQ=255)

                                                          ccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgcag                                                 <  1:140123/139‑1 (MQ=255)

                                                             aaGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATg                                                                                                <  2:174000/89‑1 (MQ=255)

                                                             aaGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATg                                                                                                >  1:174000/1‑89 (MQ=255)

                                                             aaGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGcagcag                                              >  2:317122/1‑139 (MQ=255)

                                                                    cGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTgaga                                       >  1:33521/1‑139 (MQ=255)

                                                                     ggTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGAc                                      <  2:139366/139‑1 (MQ=255)

                                                                       ttGAATGAACGTCCTGTTCCGGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACAGCAGCGGAGGGCAAATGGCAACATTACTTACCCTAATCAGCAGCCGGAGCTTTCAGTGCGGCGGCAGGTTGATACTg                                    >  1:774410/1‑139 (MQ=255)

                                                                             gaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGt                              <  2:33521/139‑1 (MQ=255)

                                                                               aCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCg                            <  1:128217/139‑1 (MQ=255)

                                                                                cGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCg                                                                                   <  1:590937/83‑1 (MQ=255)

                                                                                cGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCg                                                                                   >  2:590937/1‑83 (MQ=255)

                                                                                            ggTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCt               <  2:218897/139‑1 (MQ=255)

                                                                                                         gCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCgg                                                                                                          >  1:151679/1‑35 (MQ=255)

                                                                                                         gCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCgg                                                                                                          <  2:151679/35‑1 (MQ=255)

                                                                                                         gCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACgg  <  2:242475/139‑1 (MQ=255)

                                                                                                            tCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTa                    <  1:662703/118‑1 (MQ=255)

                                                                                                            tCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTa                    >  2:662703/1‑118 (MQ=255)

                                                                                                               tGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTgaga                                       <  1:332226/96‑1 (MQ=255)

                                                                                                               tGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTgaga                                       >  2:332226/1‑96 (MQ=255)

CAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGCCCCCCGCCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGACGGATACGG  >  NC_000913/3308876‑3309120

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