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
A13 F1 I1 R1	86	24.1	1002126	98.1%	983085	121.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,820,136	G→A	P360L (CCG→CTG)	chbC ←	N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,820,136	0	G	A	100.0%	135.3 / NA	39	P360L (CCG→CTG)	chbC	N,N'‑diacetylchitobiose‑specific enzyme IIC component of PTS
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (19/20); total (19/20)

GTGTTAAAGAAGGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACGGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCGAGAGGCGATAAAGATAGCC  >  NC_000913/1820010‑1820270

gtgtTAAAGAAGGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCa                                                                                                                            <  1:325917/139‑1 (MQ=255)

  gtTAAAGAAGGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          <  2:302853/139‑1 (MQ=255)

  gtTAAAGAAGGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          <  2:352431/139‑1 (MQ=255)

  gtTAAAGAAGGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          <  2:116312/139‑1 (MQ=255)

       agaagGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGtt                                                                                                                     >  1:26887/1‑139 (MQ=255)

         aagGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCa                                                                                                                   <  2:423640/139‑1 (MQ=255)

                       ggTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          >  1:496897/1‑118 (MQ=255)

                       ggTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          <  2:496897/118‑1 (MQ=255)

                       ggTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGa                                                                                                     >  2:142124/1‑139 (MQ=255)

                                     acgtttcAATATTGGTTACCGGAGAAATAATGCCCATGTAGTACGCAGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACAACACCGGGTCCATGATAATTGGCAGACCAAACAGAATCgg                                                                                       <  1:142124/133‑1 (MQ=255)

                                              tatTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAAt                                                                              <  1:4217/139‑1 (MQ=255)

                                                  ggTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTgg                                                                          <  1:44489/139‑1 (MQ=255)

                                                   gTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGa                                                                         >  1:27106/1‑139 (MQ=255)

                                                   gTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGa                                                                         >  1:150670/1‑139 (MQ=255)

                                                   gTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGa                                                                         >  1:402737/1‑139 (MQ=255)

                                                                        aTGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCa                                                    >  2:37143/1‑139 (MQ=255)

                                                                          gtagtaCGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGTACGGCAGCGCCAGt                                                  >  1:429905/1‑139 (MQ=255)

                                                                                   tGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGtt                                                                                     >  1:85282/1‑95 (MQ=255)

                                                                                   tGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGtt                                                                                     <  2:85282/95‑1 (MQ=255)

                                                                                   tGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCAcc                                         <  1:469693/139‑1 (MQ=255)

                                                                                   tGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCAcc                                         <  1:22158/139‑1 (MQ=255)

                                                                                   tGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCAcc                                         >  2:130217/1‑139 (MQ=255)

                                                                                     cGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCg                                                                                   <  1:115680/95‑1 (MQ=255)

                                                                                     cGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCg                                                                                   >  2:115680/1‑95 (MQ=255)

                                                                                     cGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTg                                       >  1:61/1‑139 (MQ=255)

                                                                                     cGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTg                                       >  2:202991/1‑139 (MQ=255)

                                                                                      gAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGa                                      <  2:26887/139‑1 (MQ=255)

                                                                                        gggTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          <  2:493947/53‑1 (MQ=255)

                                                                                        gggTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCAcc                                                                                                                          >  1:493947/1‑53 (MQ=255)

                                                                                             aTTGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAAt                               >  2:71658/1‑139 (MQ=255)

                                                                                               tGCCGCCAGAATCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCAACTGACGATAATCa                             >  1:283933/1‑139 (MQ=255)

                                                                                                         aTCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCgag                   <  1:202991/139‑1 (MQ=255)

                                                                                                         aTCGGTTGTACCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCgag                   <  1:130217/139‑1 (MQ=255)

                                                                                                                  aCCAGTACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCGAGAGGCGATaa          >  1:402210/1‑139 (MQ=255)

                                                                                                                       tACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCg                                                                                   >  2:341879/1‑61 (MQ=255)

                                                                                                                       tACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCg                                                                                   <  1:341879/61‑1 (MQ=255)

                                                                                                                       tACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCGAGAGGCGATAAAg        <  1:355249/136‑1 (MQ=255)

                                                                                                                       tACAAACAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCGAGAGGCGATAAAg        >  2:355249/1‑136 (MQ=255)

                                                                                                                          aaaCAGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCGAGAGGCGATAAAGATAGcc  <  1:172968/139‑1 (MQ=255)

GTGTTAAAGAAGGCTCCCAGACCGGTTGGCATGGTCCACGGTGCAATATTGGTCACCGGAGGAATAATGCCCATGTAGTACGCTGCGAGGGTGATTGCCGCCAGAATCGGTTGTACCAGTACAAACGGGATAAACATCACCGGGTTCATGATAATTGGCAGACCAAACAGAATCGGTTCGTTAATCTGGAAGATGCCGGACGGCAGCGCCAGTTTTGCCACCTGACGATAATCAGCACGGCGAGAGGCGATAAAGATAGCC  >  NC_000913/1820010‑1820270

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A