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 F1 I2 R1	67	36.0	1614110	95.1%	1535018	114.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,768,876	G→A	R71Q (CGG→CAG)	yfjQ →	CP4‑57 prophage, uncharacterized protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,768,876	0	G	A	100.0%	135.2 / NA	39	R71Q (CGG→CAG)	yfjQ	CP4‑57 prophage, uncharacterized protein
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (17/22); total (17/22)

GGTGCCCAGCGTATTCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACGGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTA  >  NC_000913/2768748‑2769002

ggtgCCCAGCGTATTCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGAATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGAc                                                                                                                      <  1:429282/139‑1 (MQ=255)

         cGTATTCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCcgtcgt                                                                                                             <  2:343923/139‑1 (MQ=255)

         cGTATTCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAACCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCcgtcgt                                                                                                             <  2:103555/139‑1 (MQ=255)

           tATTCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCcgtcgtcg                                                                                                           >  1:442484/1‑139 (MQ=255)

              tCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        <  2:728857/139‑1 (MQ=255)

               cAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAg                                                                                                       <  1:403821/139‑1 (MQ=255)

               cAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAg                                                                                                       <  2:64786/139‑1 (MQ=255)

               cAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAg                                                                                                       <  2:416308/139‑1 (MQ=255)

                  tGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTg                                                                                                         <  1:301246/134‑1 (MQ=255)

                  tGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTg                                                                                                         >  2:301246/1‑134 (MQ=255)

                     ggATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACt                                                                                                 <  2:442484/139‑1 (MQ=255)

                     ggATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACt                                                                                                 >  1:162677/1‑139 (MQ=255)

                                aaTCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATAtgct                                                                                      >  1:5488/1‑139 (MQ=255)

                                aaTCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATAtgct                                                                                      >  2:592340/1‑139 (MQ=255)

                                    ccGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTgcgc                                                                                  <  1:286002/139‑1 (MQ=255)

                                      gCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        <  1:437170/115‑1 (MQ=255)

                                      gCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        >  2:437170/1‑115 (MQ=255)

                                                      gTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCaa                                                                >  1:801754/1‑139 (MQ=255)

                                                        atataCCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAAt                                                              <  2:801754/139‑1 (MQ=255)

                                                           taCCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTAc                                                           >  2:411599/1‑139 (MQ=255)

                                                              ccACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        >  2:336493/1‑91 (MQ=255)

                                                              ccACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        <  1:336493/91‑1 (MQ=255)

                                                                acaATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTg                                                                                                         >  2:677201/1‑88 (MQ=255)

                                                                acaATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTg                                                                                                         <  1:677201/88‑1 (MQ=255)

                                                                acaATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        <  1:762904/89‑1 (MQ=255)

                                                                acaATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGa                                                                                                        >  2:762904/1‑89 (MQ=255)

                                                                acaATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTa                                                      >  1:66647/1‑139 (MQ=255)

                                                                 caATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTaa                                                     >  1:781207/1‑139 (MQ=255)

                                                                                aCAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAAt                                      >  1:296486/1‑139 (MQ=255)

                                                                                   gCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTAt                                   <  2:296486/139‑1 (MQ=255)

                                                                                   gCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTAt                                   <  2:671530/139‑1 (MQ=255)

                                                                                             ggAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATAc                                                                                                  <  2:216041/66‑1 (MQ=255)

                                                                                             ggAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATAc                                                                                                  >  1:216041/1‑66 (MQ=255)

                                                                                               aaGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTAc                                                           <  2:633954/103‑1 (MQ=255)

                                                                                               aaGGCTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTAc                                                           >  1:633954/1‑103 (MQ=255)

                                                                                                   cTTCCAGCCATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCAc                   <  2:162677/139‑1 (MQ=255)

                                                                                                           cATTCTTTGCCTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCAc           <  2:556373/139‑1 (MQ=255)

                                                                                                                    ccTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTa  <  2:5488/139‑1 (MQ=255)

                                                                                                                    ccTGTCAGACACAGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTa  >  2:341374/1‑139 (MQ=255)

GGTGCCCAGCGTATTCAGTGAGGATAAACACGAATCCCGCAGTGAACGCTACACGTATATACCCACAATTTCCCTGCTGGACAGCCTGCAGCGGGAAGGCTTCCAGCCATTCTTTGCCTGTCAGACACGGGTACGTGACCCCCGTCGTCGTGAGCATACTAAGCATATGCTGCGCCTACGTCGGGAGGGGCAAATTACCGGTAAACAGGTTCCGGAAATTATCCTGCTTAACTCTCACGATGGCACCAGTTCGTA  >  NC_000913/2768748‑2769002

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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