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
A3 F50 I1 R1	300	54.7	1718999	98.4%	1691495	149.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,678,816	T→C	E184E (GAA→GAG)	yphF ←	putative sugar ABC transporter periplasmic binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,678,816	0	T	C	100.0%	158.3 / NA	44	E184E (GAA→GAG)	yphF	putative sugar ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/25); total (19/25)

CGAGTGTCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACTTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCAAATTCCAGCGGATCGCCGAC  >  NC_000913/2678668‑2678962

cGAGTGTCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAAcctc                                                                                                                                                  >  2:1304/1‑151 (MQ=255)

  aGTGTCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAAcctctt                                                                                                                                                <  1:196059/151‑1 (MQ=255)

   gtgtCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACctcttc                                                                                                                                               <  1:50124/151‑1 (MQ=255)

     gtCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCa                                                                                                                                              <  1:616974/150‑1 (MQ=255)

     gtCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCa                                                                                                                                              <  1:298079/150‑1 (MQ=255)

             gCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCttt                                                                                                                                      >  2:769866/1‑150 (MQ=255)

             gCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTa                                                                                                                                     <  1:117380/151‑1 (MQ=255)

             gCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTa                                                                                                                                     <  2:368340/151‑1 (MQ=255)

               ccGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACg                                                                                                                                   >  2:248920/1‑151 (MQ=255)

                 gATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTc                                                                                                                                 <  1:479845/151‑1 (MQ=255)

                   ttCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGc                                                                                                                               >  2:797945/1‑151 (MQ=255)

                         cATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGcaca                                                                                                                         <  2:651246/151‑1 (MQ=255)

                                 cGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTc                                                                                                                 <  1:87113/151‑1 (MQ=255)

                                           cGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCg                                                                                                       >  1:327964/1‑151 (MQ=255)

                                            ggCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGc                                                                                                      >  2:859515/1‑151 (MQ=255)

                                                 ggAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAAtt                                                                                                  <  2:675648/150‑1 (MQ=255)

                                                 ggAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATtg                                                                                                 >  1:29357/1‑151 (MQ=255)

                                                   agaTAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATtgat                                                                                               >  1:272939/1‑151 (MQ=255)

                                                    gaTAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATtgatg                                                                                              <  2:852335/151‑1 (MQ=255)

                                                     aTAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATtgatg                                                                                              >  2:3608/1‑150 (MQ=255)

                                                      tAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGAc                                                                                            >  1:337425/1‑151 (MQ=255)

                                                       aaTTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACg                                                                                           <  1:248895/151‑1 (MQ=255)

                                                           aGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCaa                                                                                       <  2:660648/151‑1 (MQ=255)

                                                           aGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCa                                                                                        >  1:647901/1‑150 (MQ=255)

                                                                  cACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCg                                                                                 <  1:614057/150‑1 (MQ=255)

                                                                      aaCGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTgg                                                                            >  2:773815/1‑151 (MQ=255)

                                                                        cGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTc                                                                          >  2:288957/1‑151 (MQ=255)

                                                                             aTCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAAttt                                                                     <  1:12922/151‑1 (MQ=255)

                                                                              tCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAAtttt                                                                    >  1:663526/1‑151 (MQ=255)

                                                                                gCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTAt                                                                  <  2:735302/151‑1 (MQ=255)

                                                                                   ttATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTAtt                                                                 <  1:1304/149‑1 (MQ=255)

                                                                                   ttATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTgg                                                               >  2:423873/1‑151 (MQ=255)

                                                                                    tATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTgg                                                               <  2:616684/150‑1 (MQ=255)

                                                                                         aaaaCAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCaat                                                           <  2:199379/149‑1 (MQ=255)

                                                                                         aaaaCAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCa                                                             <  2:135615/147‑1 (MQ=255)

                                                                                           aaCAGACCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCaa                                                            <  1:597750/146‑1 (MQ=255)

                                                                                               gTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAaataat                                                   <  2:72095/151‑1 (MQ=255)

                                                                                                        tGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGc                                            >  1:95645/1‑149 (MQ=255)

                                                                                                            tAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGtt                                      >  1:363827/1‑151 (MQ=255)

                                                                                                                   aaTTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGt                               <  2:704976/151‑1 (MQ=255)

                                                                                                                   aaTTTGCGCGCCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGt                               >  1:251922/1‑151 (MQ=255)

                                                                                                                            gcCGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTAcc                       >  2:762267/1‑150 (MQ=255)

                                                                                                                              cGGGAACGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCaaa                    <  2:29379/151‑1 (MQ=255)

                                                                                                                                   aCGCGGGATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCAAATTCCa               <  2:312120/151‑1 (MQ=255)

                                                                                                                                         gATTTTAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCAAATTCCAGCGGAt         <  2:214970/151‑1 (MQ=255)

                                                                                                                                              tAAAACCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCAAATTCCAGCGGATCGcc     <  2:593960/150‑1 (MQ=255)

                                                                                                                                                aaaCCTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCAAATTCCAGCGGATCGCCGAc  >  1:487415/1‑151 (MQ=255)

CGAGTGTCGCACCGCCCGATTCCCCCATAATGGCGTTGAGATCCGGCGTGGAGATAATTAGTTTTTCACCAACGGAAATCGCTTTATCTAAAACAGTCCCTTCCTGATTAGCGACAATTTGCGCGCCGGGAACGCGGGATTTTAAAACTTCTTCAAATCCTTTACGTCGCTGCACACAAACTTCAAAGGCTTCGCAATTGATGACGGCAATTTTCGGCTGGTCAATTTTATTGGCAATAAAATAATCAGCGGCAGCGTTACCCAGTTTTTTACCAAATTCCAGCGGATCGCCGAC  >  NC_000913/2678668‑2678962

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A