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
A33 F30 I1 R1	20	46.9	1598816	99.4%	1589223	139.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,542,685	C→A	D282Y (GAC→TAC)	cysP ←	thiosulfate/sulfate ABC transporter periplasmic binding protein CysP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,542,685	0	C	A	100.0%	93.0 / NA	27	D282Y (GAC→TAC)	cysP	thiosulfate/sulfate ABC transporter periplasmic binding protein CysP
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (11/16); total (11/16)

CGCCGCTGGTGAAGTGGGTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAAT  >  NC_000913/2542550‑2542820

cgccgcTGGTGAAGTGGGTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGtg                                                                                                                                     >  2:191260/1‑140 (MQ=255)

cgccgcTGGTGAAGTGGGTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGtg                                                                                                                                     >  1:572717/1‑140 (MQ=255)

cgccgcCGGTGAAGGGGGTTTTCATCACTTCCGGCCAGGCGCCAAATTTGTCTTCAACGCGGAACAGCTCGGTCTGAGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGGAGTAATAGTAGGtg                                                                                                                                     >  2:325406/1‑140 (MQ=255)

    gcTGGTGAAGTGGGTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGtgatga                                                                                                                                 <  1:191260/140‑1 (MQ=255)

                ggTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCt                                                                                                                     <  2:116497/140‑1 (MQ=255)

                ggTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCt                                                                                                                     <  1:397071/140‑1 (MQ=255)

                ggTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCt                                                                                                                     <  1:708348/140‑1 (MQ=255)

                   tttCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCg                                                                                                                  <  2:291405/140‑1 (MQ=255)

                   tttCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCg                                                                                                                  <  1:664525/140‑1 (MQ=255)

                    ttCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCgg                                                                                                                 <  1:640379/140‑1 (MQ=255)

                         caCTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCtat                                                                                                            <  1:209815/140‑1 (MQ=255)

                          aCTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCg                                                                                                                  >  1:266411/1‑133 (MQ=255)

                          aCTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCg                                                                                                                  <  2:266411/133‑1 (MQ=255)

                                ggCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCa                                                                                                     >  1:399831/1‑140 (MQ=255)

                                      gAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAg                                                                                               >  2:214773/1‑140 (MQ=255)

                                       aGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGa                                                                                              <  1:772151/140‑1 (MQ=255)

                                       aGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGa                                                                                              <  2:619637/140‑1 (MQ=255)

                                                            ggAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTcc                                                                         >  1:195323/1‑140 (MQ=255)

                                                               aCAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTa                                                                      <  1:253756/140‑1 (MQ=255)

                                                                       gTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGc                                                              <  1:214773/140‑1 (MQ=255)

                                                                               gAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGt                                                      <  2:399831/140‑1 (MQ=255)

                                                                                              tttGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACg                                       <  2:416955/140‑1 (MQ=255)

                                                                                                                    ttCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCa                     >  1:734188/1‑136 (MQ=255)

                                                                                                                    ttCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCa                     <  2:734188/136‑1 (MQ=255)

                                                                                                                    ttCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAAt                 >  2:321879/1‑140 (MQ=255)

                                                                                                                     tCACGCGGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATg                >  2:531678/1‑140 (MQ=255)

                                                                                                                         gcgGTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTgg            >  2:53128/1‑140 (MQ=255)

                                                                                                                           ggTAGTAATAGTAGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGtt          >  2:399284/1‑140 (MQ=255)

                                                                                                                                   tagtagGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAAt  <  2:583081/140‑1 (MQ=255)

CGCCGCTGGTGAAGTGGGTTTTCATCACTTCCGGCCAGGAGCCAAATTTGTCTTCCACGCGGAACAGCTCGGTCTGCGGGAATTTGTCTTTCAGTTTGTCCATCACCTCCGGGTTATTCACGCGGTAGTAATAGTCGGTGATGATGGTTTGCGCCTGCGGGCTATAGAGCCAGTTCAGATAGGCTTTGGCGGCTTTTTCCGTACCGTTGGCCTGCACGTTTTTATCAACCCACGCCACCGGGAATTCCGCCAGAATGTTGGTTTTCGGAAT  >  NC_000913/2542550‑2542820

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