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
A8 F1 I2 R1	97	53.3	2484976	94.5%	2348302	111.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,184,452	G→A	A22V (GCC→GTC)	thiD ←	hydroxy‑methylpyrimidine kinase and hydroxy‑phosphomethylpyrimidine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,184,452	0	G	A	100.0%	130.0 / NA	38	A22V (GCC→GTC)	thiD	hydroxy‑methylpyrimidine kinase and hydroxy‑phosphomethylpyrimidine kinase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/17); total (21/17)

CGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGGCCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACTGCCTGGCCCCT  >  NC_000913/2184319‑2184583

cGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGa                                                                                                                                >  1:1197975/1‑139 (MQ=255)

cGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGa                                                                                                                                >  2:881910/1‑139 (MQ=255)

cGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGa                                                                                                                                >  2:626846/1‑139 (MQ=255)

            ggcggcGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcacca                                                                                                                    <  1:881910/139‑1 (MQ=255)

            ggcggcGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcacca                                                                                                                    <  2:1211383/139‑1 (MQ=255)

                 cgACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                               <  2:180528/139‑1 (MQ=255)

                 cgACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                               <  1:698333/139‑1 (MQ=255)

                   aCAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCg                                                                                                             >  1:613115/1‑139 (MQ=255)

                     aaaaTCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGa                                                                                                           <  2:1197975/139‑1 (MQ=255)

                     aaaaTCAGGCTCAATGCGATACACCGACTGTACGCCACGGGCATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCgaa                                                                                                           <  2:742764/139‑3 (MQ=255)

                            ggCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTAc                                                                                                    <  1:368015/139‑1 (MQ=255)

                                               aCTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGtt                                                                                 >  2:318763/1‑139 (MQ=255)

                                               aCTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGtt                                                                                 >  2:1132111/1‑139 (MQ=255)

                                                  gTACGCCACGGGTATTTTGCGCCACCAGTGTAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAAt                                                                              >  1:484516/1‑139 (MQ=255)

                                                       ccACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGtt                                                                         >  1:847356/1‑139 (MQ=255)

                                                           gggTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCAt                                                                     >  1:33743/1‑139 (MQ=255)

                                                                    gcgcCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCAcc                                                            <  1:626846/139‑1 (MQ=255)

                                                                     cgcCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcac                                                                                                                      >  1:279865/1‑80 (MQ=255)

                                                                     cgcCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcac                                                                                                                      <  2:279865/80‑1 (MQ=255)

                                                                       ccaccaGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCaa                                                                                              <  1:979216/102‑1 (MQ=255)

                                                                       ccaccaGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCaa                                                                                              >  2:979216/1‑102 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCagag                                        >  2:213240/1‑139 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCagag                                        <  2:421321/139‑1 (MQ=255)

                                                                                        aCTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCagag                                        <  2:847356/139‑1 (MQ=255)

                                                                                            aGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAAt                                                                                                                              <  2:980971/49‑1 (MQ=255)

                                                                                            aGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAAt                                                                                                                              >  1:980971/1‑49 (MQ=255)

                                                                                             gCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcacca                                                                                                                    <  2:493589/58‑1 (MQ=255)

                                                                                             gCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGcacca                                                                                                                    >  1:493589/1‑58 (MQ=255)

                                                                                             gCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATg                                                                    >  2:264061/1‑106 (MQ=255)

                                                                                             gCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATg                                                                    <  1:264061/106‑1 (MQ=255)

                                                                                             gCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCAt                                   >  1:776053/1‑139 (MQ=255)

                                                                                              cAACCATAAGCGCCCAGTGCCGAGAAGGGTTTAAGATCGACCTGAATCCCCGCACCACCAGGCGGGGCAGTACCGGCAATCGTCGGAGATTTAATTCGTTTCCTGCCTGCACCTCCTGCGTCAATTTCCAGATGGCATc                                  >  2:919808/1‑139 (MQ=255)

                                                                                                           cAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                               >  2:1055735/1‑49 (MQ=255)

                                                                                                           cAAGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACt                                                                                                               <  1:1055735/49‑1 (MQ=255)

                                                                                                             aGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTc                                                                                                              >  1:974748/1‑48 (MQ=255)

                                                                                                             aGTGCCGAGAAGGTTTTAAGATCGACCTGAATCCCCGCACCACCACTc                                                                                                              <  2:974748/48‑1 (MQ=255)

                                                                                                                           tttAAGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACTGCCTGGcc     >  1:24929/1‑139 (MQ=255)

                                                                                                                              aaGATCGACCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACTGCCTGGCCCCt  >  1:1066252/1‑139 (MQ=255)

CGAATCGAGCTGGGCGGCGACAAAATCAGGCTCAATGCGATACACCGACTGTACGCCACGGGTATTTTGCGCCACCAGTGCAGTAATAACTGAGCAACCATAAGCGCCAAGTGCCGAGAAGGTTTTAAGATCGGCCTGAATCCCCGCACCACCACTCGGATCAGTACCGGCAATCGTCAGAGCGTTAATTCGTTTCATGCCTGCACCTCCTGCGTCAATTGCCAGAGCGCATCAAGGAAATGTGGAACAAAACTGCCTGGCCCCT  >  NC_000913/2184319‑2184583

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