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
A10 F28 I1 R1	126	72.5	2472046	99.4%	2457213	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,340,358	A→G	Y39C (TAC→TGC)	lapA →	lipopolysaccharide assembly protein A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,340,358	0	A	G	100.0%	155.1 / NA	43	Y39C (TAC→TGC)	lapA	lipopolysaccharide assembly protein A
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (26/17); total (26/17)

CCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAG  >  NC_000913/1340224‑1340494

ccACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTa                                                                                                                                     <  2:437832/140‑1 (MQ=255)

     tAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTcc                                                                                                                                >  2:514051/1‑140 (MQ=255)

       aCGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCcac                                                                                                                              >  1:735046/1‑140 (MQ=255)

            aaGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGc                                                                                                                         <  2:735046/140‑1 (MQ=255)

                             tACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTtgct                                                                                                        <  1:1116322/140‑1 (MQ=255)

                              aCTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTtgctg                                                                                                       <  2:245847/140‑1 (MQ=255)

                                    tttCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGt                                                                                                 <  1:693848/140‑1 (MQ=255)

                                          aCTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTa                                                                                           >  2:104257/1‑140 (MQ=255)

                                           cTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTAt                                                                                          <  1:282869/140‑1 (MQ=255)

                                              gtgtTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCgg                                                                                       >  1:520456/1‑140 (MQ=255)

                                                  tAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCggttgg                                                                                   >  1:978173/1‑140 (MQ=255)

                                                  tAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCggttgg                                                                                   <  1:514051/140‑1 (MQ=255)

                                                        tCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAtt                                                                             >  1:150096/1‑140 (MQ=255)

                                                         cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAttt                                                                            >  2:973965/1‑140 (MQ=255)

                                                         cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAttt                                                                            <  2:150096/140‑1 (MQ=255)

                                                         cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGAttt                                                                            <  2:1123417/140‑1 (MQ=255)

                                                                  ttCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGt                                                                   >  2:968693/1‑140 (MQ=255)

                                                                   tCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGtt                                                                  <  2:520456/140‑1 (MQ=255)

                                                                         aCGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCt                                                            <  2:704682/140‑1 (MQ=255)

                                                                                     cAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtgt                                                >  1:459905/1‑140 (MQ=255)

                                                                                     cAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtgt                                                >  1:160709/1‑140 (MQ=255)

                                                                                          cGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTccc                                           >  1:282347/1‑140 (MQ=255)

                                                                                                      gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 >  2:335656/1‑122 (MQ=255)

                                                                                                      gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 >  2:775626/1‑122 (MQ=255)

                                                                                                      gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 <  1:335656/122‑1 (MQ=255)

                                                                                                      gACGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCgtg                                                 <  1:775626/122‑1 (MQ=255)

                                                                                                       aCGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGa                              >  1:553932/1‑140 (MQ=255)

                                                                                                       aCGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGa                              >  2:87701/1‑140 (MQ=255)

                                                                                                       aCGTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGa                              >  1:1114153/1‑140 (MQ=255)

                                                                                                         gTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAAc                            >  1:1204214/1‑140 (MQ=255)

                                                                                                         gTTTAATTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAAc                            <  2:1204214/140‑1 (MQ=255)

                                                                                                              aTTATCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTaaa                       >  1:654255/1‑140 (MQ=255)

                                                                                                                  tCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTGTTGTTTGCTGCGGGGATTGCTATCGGTTGGTTGGTTTGTGGCCTGTTCTGGCTGGGAGTTCGCGTTTCCCTCGCGCGCGCTGAACGTAAAATaa                   >  2:373074/1‑140 (MQ=255)

                                                                                                                  tCTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATaa                   >  1:118077/1‑140 (MQ=255)

                                                                                                                   cTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCt                                <  1:812015/126‑1 (MQ=255)

                                                                                                                   cTGTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCt                                >  2:812015/1‑126 (MQ=255)

                                                                                                                     gTTAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGc                >  2:357553/1‑140 (MQ=255)

                                                                                                                      ttAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCg               <  2:459905/140‑1 (MQ=255)

                                                                                                                      ttAGCGCAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCg               <  1:87701/140‑1 (MQ=255)

                                                                                                                            cAAGGGGAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGa         >  1:759731/1‑140 (MQ=255)

                                                                                                                               ggggAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGGTGCGGGGTTTGCTATCGGTTGGTTGGTTTGTGGCCTGTTCTTGCTGCGAGTTCGTGTTTCCCCGGCGCGCGCTGAACGTAAAATAAAGCGACTGGaaaa      >  2:576061/1‑140 (MQ=255)

                                                                                                                                gggAGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAAc     >  1:838736/1‑140 (MQ=255)

                                                                                                                                   aGTGCCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAg  >  2:694099/1‑140 (MQ=255)

CCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAG  >  NC_000913/1340224‑1340494

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A