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	1,982,132	G→A	R86C (CGC→TGC)	otsB ←	trehalose‑6‑phosphate phosphatase, biosynthetic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,982,132	0	G	A	100.0%	124.0 / NA	32	R86C (CGC→TGC)	otsB	trehalose‑6‑phosphate phosphatase, biosynthetic
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (13/19); total (13/19)

TGACGATAATGCAGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCGCTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCAGAATATTGTC  >  NC_000913/1981984‑1982273

tGACGATAATGCAGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACt                                                                                                                                             >  1:553075/1‑151 (MQ=255)

  aCGATAATGCAGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTcc                                                                                                                                           <  1:471080/151‑1 (MQ=255)

    gATAATGCAGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGc                                                                                                                                         >  1:562391/1‑151 (MQ=255)

        aTGCGGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCa                                                                                                                                     <  2:484708/151‑1 (MQ=255)

            aGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATg                                                                                                                                   <  1:393649/149‑1 (MQ=255)

            aGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCa                                                                                                                                 <  1:89739/151‑1 (MQ=255)

             gcgcAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCAc                                                                                                                                <  1:541392/151‑1 (MQ=255)

                          cccTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACggg                                                                                                                   >  2:171157/1‑151 (MQ=255)

                          cccTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACggg                                                                                                                   >  2:311934/1‑151 (MQ=255)

                            cTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGa                                                                                                                  >  2:120928/1‑150 (MQ=255)

                                  ccTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGAt                                                                                                            >  1:642295/1‑150 (MQ=255)

                                               gcCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGt                                                                                              >  2:46103/1‑151 (MQ=255)

                                                             cGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGACCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTccac                                                                                >  2:460633/1‑151 (MQ=255)

                                                                   cTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTg                                                                           <  2:553059/150‑1 (MQ=255)

                                                                    tGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTg                                                                           >  2:421858/1‑149 (MQ=255)

                                                                               gCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGata                                                               <  1:81368/150‑1 (MQ=255)

                                                                                 aCGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATca                                                            <  1:288296/151‑1 (MQ=255)

                                                                                  cGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATcaa                                                           <  1:75578/151‑1 (MQ=255)

                                                                                   gCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGTCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATcaat                                                          <  1:284182/151‑1 (MQ=255)

                                                                                      aaTATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATcaatgcc                                                       >  2:220351/1‑151 (MQ=255)

                                                                                      aaTATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATcaatgc                                                        <  2:589448/150‑1 (MQ=255)

                                                                                           cACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATcaatgccaatgc                                                  <  1:604065/151‑1 (MQ=255)

                                                                                                      gCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTg                                       >  2:354780/1‑151 (MQ=255)

                                                                                                       cATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGc                                      >  2:520758/1‑151 (MQ=255)

                                                                                                               aGATGAACGATATGTGTTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGcc                               >  1:458510/1‑150 (MQ=255)

                                                                                                                            gtgtTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTcc                 <  1:171162/151‑1 (MQ=255)

                                                                                                                              gtTTTACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCtt               <  1:44015/151‑1 (MQ=255)

                                                                                                                                  tACCATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCa            <  2:109839/150‑1 (MQ=255)

                                                                                                                                    ccATTGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCAGaa         <  2:339953/151‑1 (MQ=255)

                                                                                                                                        tGATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCAGAatat      <  2:208103/150‑1 (MQ=255)

                                                                                                                                         gATGTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCAGAATAtt     <  2:298311/150‑1 (MQ=255)

                                                                                                                                            gTCACGGCACTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCAGAATATTGTc  <  1:658710/150‑1 (MQ=255)

TGACGATAATGCAGCGCAAAAGCCATCCCTTTCGCCTCCAGCTCCGCGCCGGGATACTGAGCGATGACTGTATGCAGTTGCACGCTAATATCACGCGCAATCGCATCCGGCAGATGAACGATATGTGTTTTACCATTGATGTCACGGCGCTCCGCCCCATGCACGCCCGCTAACGGGAAGCGATAAGGTTTTGCCAGTGCGTCAAGCTCCACCATTGAGCGCCCTGATATCAATGCCAATGCACCATCACTTGCGGTTGCCAGTAGCTGTAGTCCTTGCAGAATATTGTC  >  NC_000913/1981984‑1982273

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