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
A12 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,430,461	G→A	G126G (GGC→GGT)	aroE ←	shikimate dehydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,430,461	0	G	A	100.0%	91.6 / NA	28	G126G (GGC→GGT)	aroE	shikimate dehydrogenase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/14); total (14/14)

CAACGCCTGAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCGCCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCGCATGAGGGTATTAACAGCACCAGCC  >  NC_000913/3430326‑3430596

cAACGCCTGAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGa                                                                                                                                     <  1:121202/140‑1 (MQ=255)

 aaCGCCTGAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGAt                                                                                                                                    >  1:315217/1‑140 (MQ=255)

    gCCTGAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAg                                                                                                                                 <  2:315217/140‑1 (MQ=255)

        gAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGa                                                                                                                             <  2:292554/140‑1 (MQ=255)

        gAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGa                                                                                                                             <  2:194181/140‑1 (MQ=255)

                ccAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTaa                                                                                                                     >  2:91304/1‑140 (MQ=255)

                   gtgtGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAAcc                                                                                                                  >  1:460103/1‑140 (MQ=255)

                                             ttCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCa                                                                                        <  1:162935/140‑1 (MQ=255)

                                                             ttCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAATACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGcc                                                                        <  1:246974/139‑1 (MQ=255)

                                                              tCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCt                                                                       >  1:525244/1‑140 (MQ=255)

                                                               ccGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGTAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCGAGATCGCTTAACAAGCCTa                                                                      <  2:219627/140‑1 (MQ=255)

                                                               ccGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTa                                                                      >  1:150260/1‑140 (MQ=255)

                                                               ccGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTa                                                                      >  1:303083/1‑140 (MQ=255)

                                                                 gATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTaca                                                                    >  2:458043/1‑140 (MQ=255)

                                                                 gATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTaca                                                                    >  1:344426/1‑140 (MQ=255)

                                                                      gTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATc                                                               <  2:96182/140‑1 (MQ=255)

                                                                                       gTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATc                                                               >  2:25946/1‑123 (MQ=255)

                                                                                       gTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATc                                                               <  1:25946/123‑1 (MQ=255)

                                                                                                  ggAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCAtct                                   >  1:84852/1‑140 (MQ=255)

                                                                                                  ggAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCAtct                                   >  2:460493/1‑140 (MQ=255)

                                                                                                  ggAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCAtct                                   >  1:173125/1‑140 (MQ=255)

                                                                                                        gCAGTAGTACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAAc                             <  1:460493/140‑1 (MQ=255)

                                                                                                          agtagtACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCg                           <  2:303083/140‑1 (MQ=255)

                                                                                                          agtagtACGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCg                           <  2:344426/140‑1 (MQ=255)

                                                                                                              gtaCGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCGCATg                       <  2:525244/140‑1 (MQ=255)

                                                                                                              gtaCGCCGCGAGATGCTCCACCAGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCGCATg                       <  2:84852/140‑1 (MQ=255)

                                                                                                                                caccaGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCGCATGAGGGTATTAACAGCACCa     >  2:409878/1‑140 (MQ=255)

                                                                                                                                   caGCACCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCGCATGAGGGTATTAACAGCACCAGcc  >  1:144842/1‑140 (MQ=255)

CAACGCCTGAATACTGCCAGTGTGCGCAAACAATTTAGCCAACTCTTCCGCGCGGGATACCGTCCGATTAGTTATTGTCACCGCACAGTCCAGGGAAAGGAGTGGCAGTAGTACGCCGCGAGATGCTCCACCAGCGCCGATAAGCAGAATACGTAAACCAGGGCGGATAAAAGACAGACGTTCCAGATCGCTTAACAAGCCTACACCATCGGTATTGTCACCCAGCAGGCGTCCATCTTCTAACCGCATGAGGGTATTAACAGCACCAGCC  >  NC_000913/3430326‑3430596

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A