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
A4 F1 I1 R1	765	39.6	1867486	94.4%	1762906	108.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,522,650	G→A	intergenic (‑173/+79)	xapR ← / ← xapB	transcriptional activator of xapAB/xanthosine transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,522,650	0	G	A	100.0%	149.9 / NA	48	intergenic (‑173/+79)	xapR/xapB	transcriptional activator of xapAB/xanthosine transporter
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/22); total (26/22)

TCATGGCATAAAGTATTTCACCACCAGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACGCCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGTCATGATTATATTTAAACCC  >  NC_000913/2522518‑2522785

tCATGGCATAAAGTATTTCACCACCAGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGgaa                                                                                                                                   >  2:253818/1‑139 (MQ=255)

  aTGGCATAAAGTATTTCACCACCAGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGgaaga                                                                                                                                 <  2:504478/139‑1 (MQ=255)

                ttCACCACCAGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGaaaataaa                                                                                                                          >  2:448386/1‑132 (MQ=255)

                ttCACCACCAGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGaaaataaa                                                                                                                          <  1:448386/132‑1 (MQ=255)

                 cacccaccaAAT‑TCCGACCAACAAAAAAAACATGGAATAAAAAACCCGTTAA‑AAAATTGGGAAAGGAAAAGGCAAACGCAACATTGTTAACAAAGCCACAATTACCAAACCAACACCGGAAGAAAATAAAATATCTTTc                                                                                                                 <  2:713751/136‑1 (MQ=255)

                     caccaGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAA‑CAAAAACGGAAGaaaaaaaaaaaacctttaact                                                                                                             >  1:713751/1‑127 (MQ=255)

                                          aaaCACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAag                                                                                         <  2:397/139‑1 (MQ=255)

                                             cacaATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAagcag                                                                                      <  1:611235/139‑1 (MQ=255)

                                                 aTGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAag                                                                                         <  2:358775/132‑1 (MQ=255)

                                                 aTGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAag                                                                                         >  1:358775/1‑132 (MQ=255)

                                                  tGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTATg                                                                                 >  2:175209/1‑139 (MQ=255)

                                                         atatACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGgaa                                                                                                                                   >  1:324570/1‑83 (MQ=255)

                                                         atatACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGgaa                                                                                                                                   <  2:324570/83‑1 (MQ=255)

                                                             aCCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCttt                                                                                                   <  1:782600/111‑1 (MQ=255)

                                                             aCCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCttt                                                                                                   >  2:782600/1‑111 (MQ=255)

                                                               ccGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTc                                                                                                                 >  1:304342/1‑95 (MQ=255)

                                                               ccGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTc                                                                                                                 <  2:304342/95‑1 (MQ=255)

                                                               ccGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGcc                                                                     >  2:582669/1‑139 (MQ=255)

                                                                cGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCcg                                                                    >  2:781034/1‑139 (MQ=255)

                                                                cGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCcg                                                                    <  1:643161/139‑1 (MQ=255)

                                                                 ggTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCcgc                                                                   >  2:104679/1‑139 (MQ=255)

                                                                   tAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGa                                                                 <  2:510574/139‑1 (MQ=255)

                                                                    aaTACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGaa                                                                >  1:382620/1‑139 (MQ=255)

                                                                           ttGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCtttt                                                         >  1:154560/1‑139 (MQ=255)

                                                                            tGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAagag                                                                            <  1:802586/119‑1 (MQ=255)

                                                                            tGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAagag                                                                            >  2:802586/1‑119 (MQ=255)

                                                                               tACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATg                                                     <  1:582669/139‑1 (MQ=255)

                                                                                      aTAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCAcc                                              >  1:384048/1‑139 (MQ=255)

                                                                                         ggCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCttt                                                                                                   >  2:346566/1‑83 (MQ=255)

                                                                                         ggCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCttt                                                                                                   <  1:346566/83‑1 (MQ=255)

                                                                                         ggCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCt                                           >  2:533415/1‑139 (MQ=255)

                                                                                               cgcACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGgaa                                                                                                                                   <  1:607491/45‑1 (MQ=255)

                                                                                               cgcACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGgaa                                                                                                                                   >  2:607491/1‑45 (MQ=255)

                                                                                               cgcACGATTGTAAACAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGTTGc                                     >  1:599481/1‑139 (MQ=255)

                                                                                                           aaCAAAGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCa                         <  2:384048/139‑1 (MQ=255)

                                                                                                               aaGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGt                     <  2:154560/139‑1 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTc                                                                                                                 <  1:787432/46‑1 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTc                                                                                                                 >  2:787432/1‑46 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAAt                                                               >  2:388076/1‑96 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAAt                                                               <  1:388076/96‑1 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGAt                                       <  2:862621/120‑1 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGAt                                       >  1:862621/1‑120 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCtttt                           <  2:694098/132‑1 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCtttt                           >  1:694098/1‑132 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGTc                    >  1:669906/1‑139 (MQ=255)

                                                                                                                aGCACCAATACCAAAACCAACACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGTc                    >  1:203476/1‑139 (MQ=255)

                                                                                                                      aaTACCAAAACCAACACCGGAAGAAAATACAATATCTTTCACTAAGTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGTCattatt              <  2:599481/139‑1 (MQ=255)

                                                                                                                                  aaCACCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGTCATGATTATATTTAAAccc  >  2:475756/1‑139 (MQ=255)

TCATGGCATAAAGTATTTCACCACCAGATATCCGACATACATAAACACAATGG‑ATAATATACCCGGTAATACATTTGGTACAGGAATAGGCAAGCGCACGATTGTAAACAAAGCACCAATACCAAAACCAACGCCGGAAGAAAATAAAATATCTTTCACTAATTAACCTTTATCATAAAAGCAGCTCTGAAGAGCAGAGCCGCGAATCCTTTTAATGAGTCACCGCTCGATGCTTTATCTTTTCAGGGTCATGATTATATTTAAACCC  >  NC_000913/2522518‑2522785

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A