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
A12 F1 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,863,004	T→C	R78R (CGT→CGC)	gapA →	glyceraldehyde‑3‑phosphate dehydrogenase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,863,004	0	T	C	100.0%	211.4 / NA	58	R78R (CGT→CGC)	gapA	glyceraldehyde‑3‑phosphate dehydrogenase A
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (32/26); total (32/26)

CTGATTACATGGCATACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGTGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATGACTGGTCCGT  >  NC_000913/1862883‑1863137

cTGATTACATGGCATACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGaa                                                                                                                      <  1:474235/139‑1 (MQ=255)

 tGATTACATGGCATACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACAGTTGAAGGGAATGGCGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGAGCCGGCTAACCTGaaa                                                                                                                     <  1:304260/139‑1 (MQ=255)

   aTTACATGGCATACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATg                                                                                                                   >  1:796111/1‑139 (MQ=255)

       cATGGCATACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATGCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGAc                                                                                                               <  1:984431/139‑1 (MQ=255)

             aTACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACg                                                                                                              >  2:799242/1‑134 (MQ=255)

             aTACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACg                                                                                                              <  1:799242/134‑1 (MQ=255)

                     tGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGt                                                                                                          <  1:1167483/130‑1 (MQ=255)

                     tGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGt                                                                                                          >  2:1167483/1‑130 (MQ=255)

                      gAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGtt                                                                                                         <  1:1075153/130‑1 (MQ=255)

                      gAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGtt                                                                                                         >  2:1075153/1‑130 (MQ=255)

                            tGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTc                                                                                          >  1:253418/1‑139 (MQ=255)

                               cTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGt                                                                                                          >  2:1296379/1‑120 (MQ=255)

                               cTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGt                                                                                                          <  1:1296379/120‑1 (MQ=255)

                                 ccACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGa                                                                                     >  1:539695/1‑139 (MQ=255)

                                    cTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGc                                                                                  >  2:1260278/1‑139 (MQ=255)

                                      cACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCaa                                                                                <  1:1509715/139‑1 (MQ=255)

                                       aCGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGGTGGTGTTGACGTTGTCGCTGACGCAAc                                                                               >  2:847291/1‑139 (MQ=255)

                                         ggCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTg                                                                             >  2:1246341/1‑139 (MQ=255)

                                          gCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTgg                                                                            >  2:723272/1‑139 (MQ=255)

                                           ccGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGt                                                                           <  2:539695/139‑1 (MQ=255)

                                            cGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTc                                                                          >  1:183814/1‑139 (MQ=255)

                                                          cGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCtgactgac                                                            >  2:754651/1‑139 (MQ=255)

                                                              gAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGaaa                                                        >  2:693556/1‑139 (MQ=255)

                                                               aaGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAAc                                                       <  1:723272/139‑1 (MQ=255)

                                                                    aaaGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTc                                                  <  2:253418/139‑1 (MQ=255)

                                                                    aaaGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTc                                                  <  1:954419/139‑1 (MQ=255)

                                                                    aaaGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTc                                                  >  1:1339836/1‑139 (MQ=255)

                                                                      aGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGtt                                                                      <  1:1243777/117‑1 (MQ=255)

                                                                      aGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGtt                                                                      >  2:1243777/1‑117 (MQ=255)

                                                                                    tCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGc                                  >  1:519812/1‑139 (MQ=255)

                                                                                      gTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGTCGAAACTGCTCGTAAACACATCACCGCTg                                >  2:973629/1‑139 (MQ=255)

                                                                                      gTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCg                                   >  1:1226494/1‑136 (MQ=255)

                                                                                      gTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCg                                   <  2:1226494/136‑1 (MQ=255)

                                                                                          aCGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGc                            <  1:693556/139‑1 (MQ=255)

                                                                                          aCGGTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGc                            >  1:617229/1‑139 (MQ=255)

                                                                                             gTAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCgaa                         >  1:153579/1‑139 (MQ=255)

                                                                                              tAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCg                                                                                         <  1:678229/74‑1 (MQ=255)

                                                                                              tAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCg                                                                                         >  2:678229/1‑74 (MQ=255)

                                                                                              tAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGtt                                                                      <  1:301733/93‑1 (MQ=255)

                                                                                              tAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGtt                                                                      >  2:301733/1‑93 (MQ=255)

                                                                                              tAAAAAAATCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCgaag                        >  2:907303/1‑139 (MQ=255)

                                                                                                 aaaaaTCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGaaa                     <  2:519812/139‑1 (MQ=255)

                                                                                                 aaaaaTCCGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGaaa                     <  2:617229/139‑1 (MQ=255)

                                                                                                       ccGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGtt               >  2:1049339/1‑139 (MQ=255)

                                                                                                        cGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGt                                                                           >  1:395689/1‑78 (MQ=255)

                                                                                                        cGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGt                                                                           <  2:395689/78‑1 (MQ=255)

                                                                                                        cGTGTTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTa              >  1:1143342/1‑139 (MQ=255)

                                                                                                          tgtTACCGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATg            <  2:1339836/139‑1 (MQ=255)

                                                                                                                cGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATGACTGGt      >  1:1067664/1‑139 (MQ=255)

                                                                                                                cGCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATGACTGGt      <  1:1260278/139‑1 (MQ=255)

                                                                                                                 gCTGAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATGACTGGTc     <  2:153579/139‑1 (MQ=255)

                                                                                                                    gAACGCGATCCGGCTAACCTGAAATGGGACGAAGt                                                                                                          <  1:69967/35‑1 (MQ=255)

                                                                                                                    gAACGCGATCCGGCTAACCTGAAATGGGACGAAGt                                                                                                          >  2:69967/1‑35 (MQ=255)

                                                                                                                    gAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGtt                                                                                             <  2:703409/48‑1 (MQ=255)

                                                                                                                    gAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGtt                                                                                             >  1:703409/1‑48 (MQ=255)

                                                                                                                    gAACGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATGACTGGTCCGt  >  1:1351652/1‑139 (MQ=255)

                                                                                                                     aaCGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTc                                                                                          <  2:26263/50‑1 (MQ=255)

                                                                                                                     aaCGCGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTc                                                                                          >  1:26263/1‑50 (MQ=255)

CTGATTACATGGCATACATGCTGAAATATGACTCCACTCACGGCCGTTTCGACGGTACCGTTGAAGTGAAAGACGGTCATCTGATCGTTAACGGTAAAAAAATCCGTGTTACCGCTGAACGTGATCCGGCTAACCTGAAATGGGACGAAGTTGGTGTTGACGTTGTCGCTGAAGCAACTGGTCTGTTCCTGACTGACGAAACTGCTCGTAAACACATCACCGCTGGTGCGAAGAAAGTGGTTATGACTGGTCCGT  >  NC_000913/1862883‑1863137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A