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
A9 F28 I1 R1	120	56.0	1898522	99.4%	1887130	138.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,605,674	T→C	intergenic (‑64/‑77)	yhhM ← / → yhhN	DUF2500 domain‑containing protein YhhM/conserved inner membrane enzyme YhhN

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,605,674	0	T	C	100.0%	123.4 / NA	35	intergenic (‑64/‑77)	yhhM/yhhN	DUF2500 domain‑containing protein YhhM/conserved inner membrane enzyme YhhN
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/14); total (21/14)

CGAAACGATGCGGCGACGACAATTAAGCCAATGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGTCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGATG  >  NC_000913/3605546‑3605802

cgaaacgaTGCGGCGACGACAATTAAGCCAATGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGcc                                                                                                                       >  1:542951/1‑140 (MQ=255)

cgaaacgaTGCGGCGACGACAATTAAGCCAATGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGcc                                                                                                                       >  1:337515/1‑140 (MQ=255)

        tGCGGCGACGACAATTAAGCCAACGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACt                                                                                                               <  2:518984/140‑1 (MQ=255)

             cgacgaCAATTAAGCCAATGACAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAg                                                                                                          <  2:864172/140‑1 (MQ=255)

                         aGCCAATGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCa                                                                                                        >  2:502376/1‑130 (MQ=255)

                         aGCCAATGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCa                                                                                                        <  1:502376/130‑1 (MQ=255)

                                                agagGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAAc                                                                       >  1:809836/1‑140 (MQ=255)

                                                agagGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAAc                                                                       >  1:7065/1‑140 (MQ=255)

                                                agagGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAAc                                                                       >  1:412586/1‑140 (MQ=255)

                                                    gtggtTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAAt                                                                   >  1:126478/1‑140 (MQ=255)

                                                       gtTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTTGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCa                                                                >  1:893320/1‑140 (MQ=255)

                                                       gtTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCa                                                                <  2:337515/140‑1 (MQ=255)

                                                                         cTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCtt                                                >  2:801581/1‑138 (MQ=255)

                                                                         cTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCtt                                                <  1:801581/138‑1 (MQ=255)

                                                                           cATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGt                                            >  1:375176/1‑140 (MQ=255)

                                                                           cATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGt                                            >  2:556227/1‑140 (MQ=255)

                                                                           cATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGt                                            >  2:798072/1‑140 (MQ=255)

                                                                                   aaTGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTgg                                             <  1:901412/131‑1 (MQ=255)

                                                                                   aaTGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTgg                                             >  2:901412/1‑131 (MQ=255)

                                                                                                    aCCCTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGc                   >  1:2649/1‑140 (MQ=255)

                                                                                                       cTGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATg                <  1:223637/140‑1 (MQ=255)

                                                                                                        tGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATgg               <  2:602702/140‑1 (MQ=255)

                                                                                                        tGCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCACTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATgg               <  2:542951/140‑1 (MQ=255)

                                                                                                         gCCAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGc              >  2:808785/1‑140 (MQ=255)

                                                                                                          ccAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTTGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCt             <  2:893320/140‑1 (MQ=255)

                                                                                                          ccAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCt             >  1:525469/1‑140 (MQ=255)

                                                                                                          ccAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCt             >  1:336675/1‑140 (MQ=255)

                                                                                                          ccAGTTATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCt             >  2:768910/1‑140 (MQ=255)

                                                                                                               tATGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCtg        >  1:155467/1‑140 (MQ=255)

                                                                                                                aTGGTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCtgt       >  1:319085/1‑140 (MQ=255)

                                                                                                                  ggTGTTGTCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTgg     <  2:319085/140‑1 (MQ=255)

                                                                                                                    tgttgtCATCCGCCCTCCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGGAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGAt   <  1:808785/140‑1 (MQ=255)

                                                                                                                    tgttgtCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGAt   <  1:556227/140‑1 (MQ=255)

                                                                                                                    tgttgtCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGAt   <  1:768910/140‑1 (MQ=255)

                                                                                                                    tgttgtCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAAAGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGAt   >  2:660723/1‑140 (MQ=255)

                                                                                                                     gttgtCATCCGCCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGATg  <  2:155467/140‑1 (MQ=255)

CGAAACGATGCGGCGACGACAATTAAGCCAATGATAACAATAAAGAAAAGAGGTGGTTTGCTCATCTTTATCCCTCATCGGAAAATGCGGAAATAAGCATACCCTGCCAGTTATGGTGTTGTCATCCGTCCACCCTCGCCACTAAACTGGAAGCAAGACCGTAGGCATTCCGCTTACGAAAAAATAACGAATTCAAGGAACTAAGATGCTTTGGTCGTTTATCGCTGTCTGTCTTTCCGCATGGCTATCTGTGGATG  >  NC_000913/3605546‑3605802

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