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 F28 I1 R1	170	48.1	1621790	99.2%	1608815	139.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,009,586	G→A	A275T (GCG→ACG)	ygeY →	putative peptidase YgeY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,009,586	0	G	A	100.0%	151.6 / NA	44	A275T (GCG→ACG)	ygeY	putative peptidase YgeY
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (27/17); total (27/17)

TTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGACCTGGAAAGTG  >  NC_000913/3009450‑3009717

ttATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGgcacgc                                                                                                                                  <  2:713335/140‑1 (MQ=255)

   tGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTgg                                                                                                                               >  2:351317/1‑140 (MQ=255)

        aaTTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGaa                                                                                                                          >  2:571547/1‑140 (MQ=255)

                   aaaGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCcct                                                                                                               <  1:722625/140‑1 (MQ=255)

                     aGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCcctgc                                                                                                             <  1:651450/140‑1 (MQ=255)

                     aGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCcctgc                                                                                                             <  1:376553/140‑1 (MQ=255)

                         aCCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCctgcctgc                                                                                                         <  2:386237/140‑1 (MQ=255)

                           ccTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAg                                                                                                       >  2:684182/1‑140 (MQ=255)

                                           aTCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAAcgc                                                                                       >  1:379317/1‑140 (MQ=255)

                                              ttcttcACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGgt                                                                                    <  2:132860/140‑1 (MQ=255)

                                              ttcttcACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGgt                                                                                    >  1:132860/1‑140 (MQ=255)

                                                     caTCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCt                                                                             <  1:294831/140‑1 (MQ=255)

                                                      aTCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTa                                                                            >  1:329770/1‑140 (MQ=255)

                                                        ccccAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGgttg                                                                                  <  1:315676/132‑1 (MQ=255)

                                                        ccccAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGgttg                                                                                  >  2:315676/1‑132 (MQ=255)

                                                        ccccAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATg                                                                          >  2:151226/1‑140 (MQ=255)

                                                             aGCCGTTGCGCTGTAGCAGACGGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACaa                                                                     >  2:749739/1‑140 (MQ=255)

                                                                 gTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTAc                                                                 >  2:126706/1‑140 (MQ=255)

                                                                       cTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGAccgt                                                           <  1:684182/140‑1 (MQ=255)

                                                                       cTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGAccgt                                                           <  1:351317/140‑1 (MQ=255)

                                                                          tAGCAGACAGCTGCGCAGTTTAAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGAccgtccg                                                        >  2:574406/1‑140 (MQ=255)

                                                                               gACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTg                                                   >  2:175648/1‑140 (MQ=255)

                                                                                  aGCTGCGCAGTTTCAATCTACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGAc                                                >  2:26160/1‑140 (MQ=255)

                                                                                  aGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGAc                                                >  1:217436/1‑140 (MQ=255)

                                                                                  aGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGAc                                                >  1:314666/1‑140 (MQ=255)

                                                                                  aGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGAc                                                >  2:326400/1‑140 (MQ=255)

                                                                                    cTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTg                                              >  1:708702/1‑140 (MQ=255)

                                                                                    cTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTg                                              >  1:300339/1‑140 (MQ=255)

                                                                                    cTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCCGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTg                                              >  2:151599/1‑140 (MQ=255)

                                                                                      gcgcAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGc                                            <  2:211542/140‑1 (MQ=255)

                                                                                                      ccGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCg                            >  1:557807/1‑140 (MQ=255)

                                                                                                          cgtcTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCaa                               <  2:598473/133‑1 (MQ=255)

                                                                                                          cgtcTGACCTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCaa                               >  1:598473/1‑133 (MQ=255)

                                                                                                                  cTGGGGCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTcc                <  2:379317/140‑1 (MQ=255)

                                                                                                                     gggCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGa             >  1:616734/1‑140 (MQ=255)

                                                                                                                     gggCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGa             >  2:596920/1‑140 (MQ=255)

                                                                                                                     gggCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGa             >  2:198214/1‑140 (MQ=255)

                                                                                                                       gCGAAACCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGAcc           <  1:563562/140‑1 (MQ=255)

                                                                                                                          aaaCCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTccc               >  1:57867/1‑133 (MQ=255)

                                                                                                                          aaaCCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTccc               <  2:57867/133‑1 (MQ=255)

                                                                                                                          aaaCCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTc                 <  2:27936/131‑1 (MQ=255)

                                                                                                                          aaaCCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTc                 >  1:27936/1‑131 (MQ=255)

                                                                                                                            aCCTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGACCTGGaa      <  1:596920/140‑1 (MQ=255)

                                                                                                                              cTGGGAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGACCTGGAAAg    <  1:26160/140‑1 (MQ=255)

                                                                                                                                gggAAGGCACGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGACCTGGAAAGTg  >  2:345718/1‑140 (MQ=255)

TTATGACGAATTCCTCGGCAAAGGCACCCTCACCGTTTCTGAAATCTTCTTCACATCCCCAAGCCGTTGCGCTGTAGCAGACAGCTGCGCAGTTTCAATCGACCGTCGTCTGACCTGGGGCGAAACCTGGGAAGGCGCGCTGGACGAAATCCGCGCCCTGCCTGCAGTACAGAAAGCTAACGCGGTTGTTTCTATGTACAACTACGACCGTCCGTCCTGGACTGGCCTGGTTTACCCAACCGAATGCTACTTCCCGACCTGGAAAGTG  >  NC_000913/3009450‑3009717

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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