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
A8 F1 I1 R1	771	44.8	2153074	94.1%	2026042	109.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,796,146	C→T	A158V (GCG→GTG)	csiR →	transcriptional repressor of csiD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,796,146	0	C	T	100.0%	103.8 / NA	34	A158V (GCG→GTG)	csiR	transcriptional repressor of csiD
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (17/17); total (17/17)

GAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATGCG  >  NC_000913/2796034‑2796281

gagaAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGCTCTGGTGGCGCGTTATCGATTTATCTGGCTgc                                                                                                               >  2:85823/1‑139 (MQ=255)

            gatgaGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGc                                                                                                   >  2:492000/1‑139 (MQ=255)

                           cGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcggcg                                                                                                           >  1:656427/1‑116 (MQ=255)

                           cGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTgcggcg                                                                                                           <  2:656427/116‑1 (MQ=255)

                            gTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTgg                                                                                          <  1:140892/132‑1 (MQ=255)

                            gTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTgg                                                                                          >  2:140892/1‑132 (MQ=255)

                              catcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTgg                                                                                 <  1:167382/139‑1 (MQ=255)

                               atcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGgtggcg                                                                                                                                     >  2:988304/1‑86 (MQ=255)

                               atcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGgtggcg                                                                                                                                     <  1:988304/86‑1 (MQ=255)

                                tcaGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTggag                                                                               >  2:572412/1‑139 (MQ=255)

                                              cGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCa                                                                 <  1:36501/139‑1 (MQ=255)

                                                    ttGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCa                                                           >  2:838687/1‑139 (MQ=255)

                                                         gCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaa                                                                                        >  1:477557/1‑105 (MQ=255)

                                                         gCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGaa                                                                                        <  2:477557/105‑1 (MQ=255)

                                                          cGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCt                                                     >  2:1048867/1‑139 (MQ=255)

                                                              cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGCTTTATCTGGCTGCGGCGAACGGTGCt                                                                                                  >  2:1038191/1‑90 (MQ=255)

                                                              cTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCt                                                                                                  <  1:1038191/90‑1 (MQ=255)

                                                                  ggTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTgcgg                                             <  1:85823/139‑1 (MQ=255)

                                                                   gTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTgg                                                                                                                   <  2:782068/68‑1 (MQ=255)

                                                                   gTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTgg                                                                                                                   >  1:782068/1‑68 (MQ=255)

                                                                      ctcACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCt                                                                                                  <  2:781701/82‑1 (MQ=255)

                                                                      ctcACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCt                                                                                                  >  1:781701/1‑82 (MQ=255)

                                                                          cTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTg                                     <  1:492000/139‑1 (MQ=255)

                                                                                gctgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTgga                                                                                <  1:433377/90‑1 (MQ=255)

                                                                                gctgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTgga                                                                                >  2:433377/1‑90 (MQ=255)

                                                                                  tgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTAt                                                                                                                               <  1:744312/41‑1 (MQ=255)

                                                                                  tgcAAATGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTAt                                                                                                                               >  2:744312/1‑41 (MQ=255)

                                                                                       aTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTAt                                                                                                                               >  1:818445/1‑36 (MQ=255)

                                                                                       aTGCGTGAACGGTTGTTTGATCTGGTGGCGCGTTAt                                                                                                                               <  2:818445/36‑1 (MQ=255)

                                                                                         gCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTa                                        >  2:890301/1‑121 (MQ=255)

                                                                                         gCGTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTa                                        <  1:890301/121‑1 (MQ=255)

                                                                                           gTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAac                                                                        >  2:937893/1‑87 (MQ=255)

                                                                                           gTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAac                                                                        <  1:937893/87‑1 (MQ=255)

                                                                                           gTGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACcgcgcg                    <  1:1048867/139‑1 (MQ=255)

                                                                                            tGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGa                                                                                         <  1:985948/69‑1 (MQ=255)

                                                                                            tGAACGGTTGTTTGATCTGGTGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGa                                                                                         >  2:985948/1‑69 (MQ=255)

                                                                                                             tggtggCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATgcg  <  2:250480/139‑1 (MQ=255)

GAGAAAATGCTTGATGAGTGGGATCTGCGTCATCAGGCGTTTCATACGGCAATTGTGGCGGGCTGTGGTTCTCACTATTTGCTGCAAATGCGTGAACGGTTGTTTGATCTGGCGGCGCGTTATCGATTTATCTGGCTGCGGCGAACGGTGCTTTCGGTGGAAATGCTGGAGGATAAACACGATCAGCACCAGACCCTGACTGCGGCGGTACTGGCGCGAGATACCGCGCGCGCCAGTGAGTTAATGCG  >  NC_000913/2796034‑2796281

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A