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
A3 F50 I2 R1	193	39.9	1341687	91.8%	1231668	149.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,376,403	T→C	D125G (GAC→GGC)	sspB ←	ClpXP protease specificity enhancing factor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,376,403	0	T	C	100.0%	105.4 / NA	30	D125G (GAC→GGC)	sspB	ClpXP protease specificity enhancing factor
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (14/16); total (14/16)

CAGGCCGCCTGGGCCTGTTTTGTATTACTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGTCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATGCCACCA  >  NC_000913/3376255‑3376549

cAGGCCGCCTGGGCCTGTTTTGTATTACTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCt                                                                                                                                                  >  1:92611/1‑151 (MQ=255)

  ggCCGCCTGGGCCTGTTTTGTATTACTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGc                                                                                                                                                >  1:242810/1‑151 (MQ=255)

                gTTTTGTATTACTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTtcat                                                                                                                                  >  2:428855/1‑151 (MQ=255)

                         tACTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCatg                                                                                                                          <  1:95182/150‑1 (MQ=255)

                          aCTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCatga                                                                                                                         <  1:29643/150‑1 (MQ=255)

                             tCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCt                                                                                                                     >  1:249728/1‑151 (MQ=255)

                                    gcgTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCt                                                                                                              <  1:277442/151‑1 (MQ=255)

                                        aaTGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCa                                                                                                           <  2:515259/150‑1 (MQ=255)

                                            ccGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTa                                                                                                      <  2:92612/151‑1 (MQ=255)

                                                    ccaccGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCtt                                                                                              >  2:411330/1‑151 (MQ=255)

                                                                ggCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAAc                                                                                   <  2:581700/150‑1 (MQ=255)

                                                                         ggTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTg                                                                         <  2:295905/151‑1 (MQ=255)

                                                                                            tgtCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCTCggg                                                          <  1:284200/147‑1 (MQ=255)

                                                                                             gtCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTa                                                      <  1:668949/150‑1 (MQ=255)

                                                                                               catcatCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGAt                                                   <  2:575670/151‑1 (MQ=255)

                                                                                                     cGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCa                                              <  1:61956/150‑1 (MQ=255)

                                                                                                      gTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCa                                              >  2:290977/1‑149 (MQ=255)

                                                                                                          tCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACgg                                        >  2:614606/1‑151 (MQ=255)

                                                                                                             ggCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGcag                                     <  1:669959/151‑1 (MQ=255)

                                                                                                             ggCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGcag                                     <  2:208491/151‑1 (MQ=255)

                                                                                                                 tGTCGCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGcagcc                                   <  2:25089/149‑1 (MQ=255)

                                                                                                                     gCCATCAATAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGc                             >  1:633526/1‑151 (MQ=255)

                                                                                                                             tAACCGACATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAAc                     >  1:16822/1‑151 (MQ=255)

                                                                                                                                    cATAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGAcgc              <  2:68324/151‑1 (MQ=255)

                                                                                                                                     aTAACGGTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGAcgcg             >  2:73536/1‑151 (MQ=255)

                                                                                                                                          ggTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATg        >  2:107063/1‑151 (MQ=255)

                                                                                                                                           gTTTCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATGc       >  2:623504/1‑151 (MQ=255)

                                                                                                                                            tttCGTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATGcc      >  1:335531/1‑151 (MQ=255)

                                                                                                                                                gTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATGccacca  <  2:615371/151‑1 (MQ=255)

                                                                                                                                                gTTGCCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATGccacc   >  2:477389/1‑150 (MQ=255)

CAGGCCGCCTGGGCCTGTTTTGTATTACTTCACAACGCGTAATGCCGGTCGACCACCGCGTGGTGGCTGCGGAGGTTCATCGTCAGGATGAGTGTCATCATCGTGATCTGGCTTGTCGCCATCAATAACCGACATAACGGTTTCGTTGTCTGCCGATGCCTCTTCATCATTCATGATGCTGGTATCTTCATCGTAGGCAGCTTCAGGCTCAAACATCGTGCCTGCGCCATTTTCACGGGCGTAGATAGCCAGCACGGCAGCCAGCGGCACAGAAACCTGACGCGGAATGCCACCA  >  NC_000913/3376255‑3376549

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 19 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A