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
A7 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	875,327	G→A	783 (TAG→TAA)	yliE →	putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	875,327	0	G	A	100.0%	138.5 / NA	44	783 (TAG→TAA)	yliE	putative membrane‑anchored cyclic‑di‑GMP phosphodiesterase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (19/25); total (19/25)

GGAAGGCGTAGAGAGCGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAGTTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAGGAACGGGTGTATAGCCTGAAACAGTCC  >  NC_000913/875195‑875457

ggAAGGCGTAGAGAGCGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACg                                                                                                                              >  1:1080764/1‑139 (MQ=255)

 gAAGGCGTAGAGAGCGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGt                                                                                                                             <  1:41723/139‑1 (MQ=255)

        tAGAGAGCGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCa                                                                                                                      >  2:1053081/1‑139 (MQ=255)

            gagCGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAAt                                                                                                                  <  1:1053081/139‑1 (MQ=255)

               cGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGt                                                                                                                             >  2:742864/1‑125 (MQ=255)

               cGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGt                                                                                                                             <  1:742864/125‑1 (MQ=255)

               cGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCaa                                                                                                               >  1:592343/1‑139 (MQ=255)

                     cGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGtt                                                                                                         <  2:592343/139‑1 (MQ=255)

                         gcgcgcGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTa                                                                                                     <  1:143753/139‑1 (MQ=255)

                           gcgggAATTAATCAAATTAGGATGTGTTCAGGCTCAGGAGGATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAATTTCGTACt                                                                                                   <  2:7675/139‑1 (MQ=255)

                              cgAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTTCAGAATCAATAAGTTCGTACTTAc                                                                                                >  1:860519/1‑139 (MQ=255)

                                     aTCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTTCAGAATCAATAAGTTCGTACTTAcagtcagt                                                                                         <  2:860519/139‑1 (MQ=255)

                                           ttAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCaa                                                                                                               >  1:1033854/1‑111 (MQ=255)

                                           ttAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCaa                                                                                                               <  2:1033854/111‑1 (MQ=255)

                                                    gtTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGa                                                                                                                    >  2:702590/1‑97 (MQ=255)

                                                    gtTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGa                                                                                                                    <  1:702590/97‑1 (MQ=255)

                                                    gtTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGtt                                                                                                         >  2:487389/1‑108 (MQ=255)

                                                    gtTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGtt                                                                                                         <  1:487389/108‑1 (MQ=255)

                                                                   tATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGtt                                                           <  2:1355172/139‑1 (MQ=255)

                                                                   tATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGtt                                                           <  1:789988/139‑1 (MQ=255)

                                                                     tCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACt                                                                                                   <  1:1291915/97‑1 (MQ=255)

                                                                     tCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACt                                                                                                   >  2:1291915/1‑97 (MQ=255)

                                                                     tCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGAt                                                                     >  2:1321181/1‑127 (MQ=255)

                                                                     tCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGAt                                                                     <  1:1321181/127‑1 (MQ=255)

                                                                     tCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGc                                                         >  2:1330790/1‑139 (MQ=255)

                                                                          aCCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGc                                                         >  2:1244143/1‑134 (MQ=255)

                                                                          aCCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGc                                                         <  1:1244143/134‑1 (MQ=255)

                                                                          aCCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCg                                                    <  1:1423807/139‑1 (MQ=255)

                                                                           ccAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCgg                                                   <  2:684525/139‑1 (MQ=255)

                                                                                   ccATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCg                                                                                                       <  2:1510449/79‑1 (MQ=255)

                                                                                   ccATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCg                                                                                                       >  1:1510449/1‑79 (MQ=255)

                                                                                   ccATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCgg                                                   >  1:555353/1‑131 (MQ=255)

                                                                                   ccATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCgg                                                   <  2:555353/131‑1 (MQ=255)

                                                                                   ccATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTaca                                           >  1:598481/1‑139 (MQ=255)

                                                                                       gCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCa                                       <  1:1405022/139‑1 (MQ=255)

                                                                                                      ggATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACt                                                                                                   >  2:147710/1‑64 (MQ=255)

                                                                                                      ggATAAAAGTGGAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACt                                                                                                   <  1:147710/64‑1 (MQ=255)

                                                                                                                 gAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAgg                            <  1:16973/124‑1 (MQ=255)

                                                                                                                 gAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAgg                            >  2:16973/1‑124 (MQ=255)

                                                                                                                 gAAAATTAGTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAGGAACGGGTGTATAGcc             >  1:1295172/1‑139 (MQ=255)

                                                                                                                         gTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTaa                               <  2:269683/113‑1 (MQ=255)

                                                                                                                         gTAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTaa                               >  1:269683/1‑113 (MQ=255)

                                                                                                                          tAAAAGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAGGAACGGGTGTATAGCCTGAAACAGt    <  2:598481/139‑1 (MQ=255)

                                                                                                                            aaaGAGTAATTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAGGAACGGGTGTATAGCCTGAAACAGTcc  <  2:1295172/139‑1 (MQ=255)

GGAAGGCGTAGAGAGCGAAGACGTTGCGCGCGAATTAATCAAATTAGGATGTGTTCAGGCTCAGGGGTATCTGTACCAGAAACCCATGCCATTCTCCGCCTGGGATAAAAGTGGAAAATTAGTAAAAGAGTAGTTTACGTATGTCCAGAATCAATAAGTTCGTACTTACAGTCAGTCTGCTGATTTTTATCATGATTTCAGCAGTTGCCTGCGGGATCTACACTCAAATGGTAAAGGAACGGGTGTATAGCCTGAAACAGTCC  >  NC_000913/875195‑875457

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 28 ≤` `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