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
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,173,933	T→C	pseudogene (346/914 nt)	gatC ←	pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,173,933	0	T	C	100.0%	128.2 / NA	36	pseudogene (346/914 nt)	gatC	pseudogene, galactitol‑specific enzyme IIC component of PTS;transport; Transport of small molecules: Carbohydrates, organic acids, alcohols; PTS system galactitol‑specific enzyme IIC
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/15); total (21/15)

CAGTCGCCGAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGTCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTCGAAATTTTCCGCCATCG  >  NC_000913/2173791‑2174079

cAGTCGCCGAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACggg                                                                                                                                            >  2:251439/1‑151 (MQ=255)

  gTCGCCGAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTc                                                                                                                                          <  2:542954/151‑1 (MQ=255)

     gCCGAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGt                                                                                                                                       >  2:506979/1‑151 (MQ=255)

      ccGAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTa                                                                                                                                      <  2:2768/151‑1 (MQ=255)

        gAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAAc                                                                                                                                    >  1:150111/1‑151 (MQ=255)

         aGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAAc                                                                                                                                    >  2:591041/1‑150 (MQ=255)

             tataAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGc                                                                                                                               >  2:304513/1‑151 (MQ=255)

                 aacaaacGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTCACCACCCGCGCCATACGGGTCAGTAACATCGCCAc                                                                                                                            >  1:218228/1‑150 (MQ=255)

                      acGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTaa                                                                                                                       >  1:150995/1‑150 (MQ=255)

                      acGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAAc                                                                                                                      >  1:67034/1‑151 (MQ=255)

                                    aCCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCg                                                                                                        >  1:220382/1‑151 (MQ=255)

                                         acCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATc                                                                                                   <  2:641949/151‑1 (MQ=255)

                                         acCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATc                                                                                                   >  1:637182/1‑151 (MQ=255)

                                          ccTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATc                                                                                                   <  2:451716/150‑1 (MQ=255)

                                           cTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGc                                                                                                 >  1:665299/1‑151 (MQ=255)

                                               cATCCCTATCATCAATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGccac                                                                                              >  2:229950/1‑150 (MQ=255)

                                                        catcCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAAtt                                                                                    <  1:334315/151‑1 (MQ=255)

                                                        catcCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAAt                                                                                     <  1:678568/150‑1 (MQ=255)

                                                                aaCCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGc                                                                            >  1:557403/1‑151 (MQ=255)

                                                                   cGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCa                                                                         <  1:673375/151‑1 (MQ=255)

                                                                        gCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCa                                                                    <  2:86870/151‑1 (MQ=255)

                                                                        gCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCa                                                                    <  1:309493/151‑1 (MQ=255)

                                                                             aTGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGt                                                               <  2:15066/151‑1 (MQ=255)

                                                                                          ccGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGgcc                                                  >  1:428887/1‑151 (MQ=255)

                                                                                            ggTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGgcc                                                  >  1:573553/1‑149 (MQ=255)

                                                                                                     cATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATTCGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCACGGCCAGCCAACATc                                        <  2:457302/150‑1 (MQ=255)

                                                                                                     cATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCg                                       <  2:629794/151‑1 (MQ=255)

                                                                                                        atGCCAGATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGAcc                                    >  1:295448/1‑151 (MQ=255)

                                                                                                              gATATTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGc                              <  2:563890/151‑1 (MQ=255)

                                                                                                                tatTCCAGATATCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGc                              >  2:451221/1‑149 (MQ=255)

                                                                                                                          atCAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTc                   <  2:417684/150‑1 (MQ=255)

                                                                                                                            cAACATTTACCGCCCGCGCCATACGGTTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCTCCAGCGCAATTTCCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGt                    <  2:212874/147‑1 (MQ=255)

                                                                                                                            cAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTCGa                 >  2:579099/1‑150 (MQ=255)

                                                                                                                            cAACATTTACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTCGa                 >  2:317186/1‑150 (MQ=255)

                                                                                                                                 tttACCACCCGCGCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTCGAAAtttt           >  2:36861/1‑151 (MQ=255)

                                                                                                                                          cgcgCCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTCGAAATTTTCCGCCATCg  >  1:447343/1‑151 (MQ=255)

CAGTCGCCGAGCTTATAAACAAACGCCGCGTGAATTACCACACCTGCCATCCCTATCATCCATGAACCGGTTGCCAGATGCAGCAACGCGCCGGTGAAGGTCATATGCCAGATATTCCAGATATCAACATTTACCACCCGCGTCATACGGGTCAGTAACATCGCCACGTTAACCAGAATCGCAATCGGAATCGCCACCAGCGCAATTTGCGACGCCCAGGTCATTGGTGAAGAGCCCGGCCAGCCAACATCGACCACATGCAGATTCAGGTCGAAATTTTCCGCCATCG  >  NC_000913/2173791‑2174079

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A