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 F1 I2 R1	766	64.2	3232166	90.9%	2938038	104.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,773,602	T→C	V441A (GTT→GCT)	mtlA →	mannitol‑specific PTS enzyme: IIA, IIB and IIC components

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,773,602	0	T	C	100.0%	207.3 / NA	58	V441A (GTT→GCT)	mtlA	mannitol‑specific PTS enzyme: IIA, IIB and IIC components
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (31/27); total (31/27)

GTAAGAAAATTCAGGATGCAGGTCTGTCGCAGATTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGTTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGACAGCCTGAAAGACA  >  NC_000913/3773476‑3773733

gTAAGAAAATTCAGGATGCAGGTCTGTCGCAGATTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGcaca                                                                                                                         <  2:338648/139‑1 (MQ=255)

         ttCAGGATGCAGGTCTGTCGCAGATTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTc                                                                                                                >  1:645679/1‑139 (MQ=255)

                   aGGTCTGTCGCAGATTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAAc                                                                                                      <  1:1469442/139‑1 (MQ=255)

                             cAGATTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACa                                                                                            >  1:62583/1‑139 (MQ=255)

                                aTTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         <  2:12493/139‑1 (MQ=255)

                                aTTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         <  1:1570638/139‑1 (MQ=255)

                                       ttACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTa                                                                                  >  1:928239/1‑139 (MQ=255)

                                       ttACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTa                                                                                  >  2:406511/1‑139 (MQ=255)

                                                 cgcgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAgg                                                                                                                             >  1:107557/1‑86 (MQ=255)

                                                 cgcgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAgg                                                                                                                             <  2:107557/86‑1 (MQ=255)

                                                 cgcgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         <  1:76115/122‑1 (MQ=255)

                                                 cgcgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         >  2:76115/1‑122 (MQ=255)

                                                 cgcgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTg                                                                        >  2:185078/1‑139 (MQ=255)

                                                   cgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGc                                                                                       <  2:1297597/122‑1 (MQ=255)

                                                   cgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGc                                                                                       >  1:1297597/1‑122 (MQ=255)

                                                   cgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTaca                                                                                >  1:194369/1‑129 (MQ=255)

                                                   cgATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTaca                                                                                <  2:194369/129‑1 (MQ=255)

                                                    gATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGAcc                                                                     >  2:1036766/1‑139 (MQ=255)

                                                     aTCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCg                                                                    >  2:306588/1‑139 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCg                                                                                                                                 >  1:794733/1‑67 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCg                                                                                                                                 >  1:668077/1‑67 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCg                                                                                                                                 <  2:794733/67‑1 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCg                                                                                                                                 <  2:668077/67‑1 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAgg                                                                                                                             <  2:37197/71‑1 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAgg                                                                                                                             >  1:37197/1‑71 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGc                                                                                                                            >  1:48083/1‑72 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGc                                                                                                                            <  2:48083/72‑1 (MQ=255)

                                                                gccgccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGtt                                                         >  2:876641/1‑139 (MQ=255)

                                                                    ccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGaa                                                                  <  1:1240626/126‑1 (MQ=255)

                                                                    ccAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGaa                                                                  >  2:1240626/1‑126 (MQ=255)

                                                                       gATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGccc                                                  >  1:1083988/1‑139 (MQ=255)

                                                                                   gTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         <  2:727214/88‑1 (MQ=255)

                                                                                   gTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         >  1:727214/1‑88 (MQ=255)

                                                                                   gTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACgg                                      <  1:1428685/139‑1 (MQ=255)

                                                                                   gTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACgg                                      >  1:441196/1‑139 (MQ=255)

                                                                                     catcaCTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCa                                    <  1:1036766/139‑1 (MQ=255)

                                                                                        cactcacCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGc                                                                                          <  1:888052/82‑1 (MQ=255)

                                                                                        cactcacCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGc                                                                                          >  2:888052/1‑82 (MQ=255)

                                                                                             acCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGca                                                                                                                           >  1:1383096/1‑44 (MQ=255)

                                                                                             acCGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGca                                                                                                                           <  2:1383096/44‑1 (MQ=255)

                                                                                               cGTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACATCTGGTTGCTGCCCAACGCCACACGGCAAACGAAgaga                          <  1:876641/139‑1 (MQ=255)

                                                                                                gTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGct                                                                                         >  2:1430032/1‑74 (MQ=255)

                                                                                                gTGACCTGACCGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCg                                                                                         <  1:1430032/75‑1 (MQ=255)

                                                                                                 tgacctgaccGAACGCGCTATGCGCCAGGCTCCGCAGGca                                                                                                                           <  2:114623/40‑1 (MQ=255)

                                                                                                 tgacctgaccGAACGCGCTATGCGCCAGGCTCCGCAGGca                                                                                                                           >  1:114623/1‑40 (MQ=255)

                                                                                                 tgacctgaccGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGaaa                        >  1:264604/1‑139 (MQ=255)

                                                                                                   acctgaccGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGt                      >  2:140675/1‑139 (MQ=255)

                                                                                                        accGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGc                                                                                       >  2:374011/1‑69 (MQ=255)

                                                                                                        accGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGc                                                                                       <  1:374011/69‑1 (MQ=255)

                                                                                                        accGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGt                      <  1:827282/134‑1 (MQ=255)

                                                                                                        accGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGt                      >  2:827282/1‑134 (MQ=255)

                                                                                                         ccGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGa                <  1:406511/139‑1 (MQ=255)

                                                                                                         ccGAACGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGa                <  1:185078/139‑1 (MQ=255)

                                                                                                             aCGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCCAACGAAGAGAAAGTAAAAGACAGc            <  1:1093561/139‑1 (MQ=255)

                                                                                                             aCGCGCTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGACAGc            >  1:312874/1‑139 (MQ=255)

                                                                                                                cgcTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGACAGCCTg         <  2:928239/139‑1 (MQ=255)

                                                                                                                  cTATGCGCCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGACAGCCTGaa       >  2:1130655/1‑139 (MQ=255)

                                                                                                                       cgcCAGGCTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGACAGCCTGAAAGACa  >  1:1365840/1‑139 (MQ=255)

GTAAGAAAATTCAGGATGCAGGTCTGTCGCAGATTTCTGTTACTAACAGCGCGATCAACAACCTGCCGCCAGATGTGGACCTCGTCATCACTCACCGTGACCTGACCGAACGCGCTATGCGCCAGGTTCCGCAGGCACAGCATATTTCGCTGACCAACTTCCTCGACAGCGGCCTGTACACCAGCCTGACCGAACGTCTGGTTGCTGCCCAACGCCACACGGCAAACGAAGAGAAAGTAAAAGACAGCCTGAAAGACA  >  NC_000913/3773476‑3773733

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A