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
A2 F48 I1 R1	45	83.3	2696702	99.2%	2675128	139.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,449,960	C→A	intergenic (‑308/‑2)	ppa ← / → ytfQ	inorganic pyrophosphatase/galactofuranose ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,449,960	0	C	A	100.0%	150.0 / NA	42	intergenic (‑308/‑2)	ppa/ytfQ	inorganic pyrophosphatase/galactofuranose ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand): ref base C (0/0); new base A (24/18); total (24/18)

GCGATTACAAACTTGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCCTATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATG  >  NC_000913/4449823‑4450091

gCGATTACAAACTTGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATa                                                                                                                                   >  1:738818/1‑140 (MQ=255)

    ttACAAACTTGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATAtgtg                                                                                                                               >  1:251870/1‑140 (MQ=255)

       cAAACTTGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGaa                                                                                                                            <  1:630296/140‑1 (MQ=255)

            ttGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGTCGAGGACACCCATATGTGGAAACGct                                                                                                                       <  2:549567/140‑1 (MQ=255)

            ttGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGct                                                                                                                       <  2:251870/140‑1 (MQ=255)

                   tAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTtat                                                                                                                <  1:817906/140‑1 (MQ=255)

                      cGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGt                                                                                                             >  1:1345343/1‑140 (MQ=255)

                                           gtgtGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCAt                                                                                        <  2:492960/140‑1 (MQ=255)

                                            tgtgATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATg                                                                                       <  2:220604/140‑1 (MQ=255)

                                                      cGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATgg                                                                             >  1:17069/1‑140 (MQ=255)

                                                        cAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGct                                                                           >  2:540453/1‑139 (MQ=255)

                                                        cAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCg                                                                           >  1:202747/1‑140 (MQ=255)

                                                          aTCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGtt                                                                         >  2:1101348/1‑140 (MQ=255)

                                                               ttACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCg                                                                    <  2:17069/140‑1 (MQ=255)

                                                               ttACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCg                                                                    <  2:753495/140‑1 (MQ=255)

                                                               ttACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCg                                                                    <  2:937023/140‑1 (MQ=255)

                                                                       cGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTa                                                            >  1:1083418/1‑140 (MQ=255)

                                                                       cGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTa                                                            >  2:1287670/1‑140 (MQ=255)

                                                                       agAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTa                                                            <  2:1083418/139‑1 (MQ=255)

                                                                         aaTTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAAc                                                          >  1:1042125/1‑140 (MQ=255)

                                                                                        tttCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCa                                           >  1:335932/1‑140 (MQ=255)

                                                                                        tttCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCa                                           >  2:804151/1‑140 (MQ=255)

                                                                                        tttCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCa                                           >  1:55262/1‑140 (MQ=255)

                                                                                           cgcgAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGt                                        <  2:904330/140‑1 (MQ=255)

                                                                                           cgcgAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGt                                        <  1:738122/140‑1 (MQ=255)

                                                                                            gcgAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGtc                                       <  2:447865/140‑1 (MQ=255)

                                                                                                aCATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGtcggat                                   <  1:1287670/140‑1 (MQ=255)

                                                                                                aCATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGtcggat                                   <  2:1345343/140‑1 (MQ=255)

                                                                                                              ataataACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTgg                     >  1:514974/1‑140 (MQ=255)

                                                                                                              ataataACTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTgg                     >  2:1204664/1‑140 (MQ=255)

                                                                                                                    aCTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGcc               >  2:1082353/1‑140 (MQ=255)

                                                                                                                     cTACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCg              >  1:1116522/1‑140 (MQ=255)

                                                                                                                      tACCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGc             <  1:804151/140‑1 (MQ=255)

                                                                                                                       aCCCCGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCa            >  2:56919/1‑140 (MQ=255)

                                                                                                                         cccGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTTGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa          >  2:202052/1‑140 (MQ=255)

                                                                                                                         cccGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa          >  1:50020/1‑140 (MQ=255)

                                                                                                                         cccGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa          >  1:343968/1‑140 (MQ=255)

                                                                                                                         cccGACGAGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGa          >  2:1088373/1‑140 (MQ=255)

                                                                                                                             acgaGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAAcc      >  1:116133/1‑140 (MQ=255)

                                                                                                                             acgaGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAAcc      >  2:1253002/1‑140 (MQ=255)

                                                                                                                              agaGGACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCa     <  2:335932/139‑1 (MQ=255)

                                                                                                                                 ggACAACCATATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAAtg  <  1:774226/140‑1 (MQ=255)

GCGATTACAAACTTGTGATTAACGTTTTATTTACTTTTTTGAAGTGTGATGTAACGCAATCTGTTACATAACGAATTGTCTATAGTTTTTTCGCGAACATCTTTTAACCAATAATAACTACCCCGACGAGGACAACCCTATGTGGAAACGCTTACTTATAGTCTCTGCAGTCTCGGCAGCCATGTCGTCTATGGCGTTGGCCGCTCCATTAACCGTTGGATTTTCGCAGGTCGGATCGGAATCAGGCTGGCGTGCCGCAGAAACCAATG  >  NC_000913/4449823‑4450091

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `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