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	65	25.3	1027584	98.0%	1007032	120.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,936,381	C→T	T35M (ACG→ATG)	rbsB →	D‑ribose ABC transporter periplasmic binding protein, ribose chemotaxis receptor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,936,381	0	C	T	100.0%	95.8 / NA	28	T35M (ACG→ATG)	rbsB	D‑ribose ABC transporter periplasmic binding protein, ribose chemotaxis receptor
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (11/17); total (11/17)

ATAACGACTACAGGACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCACGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGCTGGACTCCCAGAACAACCCGGCGAAAGAGCTGGCGAACGTGCAGGACTTAAC  >  NC_000913/3936253‑3936513

ataaCGACTACAGGACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTaacaac                                                                                                                            <  2:371918/139‑1 (MQ=255)

ataaCGACTACAGGACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTaacaac                                                                                                                            <  1:45053/139‑1 (MQ=255)

        tACAGGACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCtt                                                                                                                    >  2:312671/1‑139 (MQ=255)

           aGGACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGt                                                                                                                 <  1:261788/139‑1 (MQ=255)

            ggACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTa                                                                                                                <  2:114428/139‑1 (MQ=255)

             gACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTAt                                                                                                               <  1:98281/139‑1 (MQ=255)

               cATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGCTGGTGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTa                                                                                                                >  1:26090/1‑139 (MQ=255)

                 tCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGACAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCt                                                                                                           <  2:214818/139‑1 (MQ=255)

                  cTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTg                                                                                                          >  2:418601/1‑139 (MQ=255)

                             aCATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGgcgc                                                                                               >  1:449816/1‑139 (MQ=255)

                                           gCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAAccc                                                                                                                          >  1:243271/1‑98 (MQ=255)

                                           gCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAAccc                                                                                                                          <  2:243271/98‑1 (MQ=255)

                                              aCCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATa                                                                              <  1:418601/139‑1 (MQ=255)

                                                  tGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACt                                                                          <  2:138764/139‑1 (MQ=255)

                                                  tGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACt                                                                          <  1:29013/139‑1 (MQ=255)

                                                  tGGTTTCCGCTGTGCCGCTAAGCGCCACCGTCATTGCGAATGCGATGGCAAAAGACACCTTCGCGC‑‑‑CGGTGGACTCCATGCTTCACACCCCGTTCTTTGTAGCGCGGAAAGATTGTGAGCAGAAAGAGTAGGATAATCt                                                                          <  1:143702/139‑1 (MQ=255)

                                                        ccGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCta                                                                    <  1:317493/139‑1 (MQ=255)

                                                         cGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAAccc                                                                                                                          >  1:36069/1‑84 (MQ=255)

                                                         cGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAAccc                                                                                                                          <  2:36069/84‑1 (MQ=255)

                                                           cTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGCTGGTGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCta                                                                    <  2:26090/139‑1 (MQ=255)

                                                                      aGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGc                                                      <  2:449816/139‑1 (MQ=255)

                                                                       gcgcCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGCt                                                     <  2:144113/139‑1 (MQ=255)

                                                                                                           ccATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAAc                                                                           >  1:475732/1‑81 (MQ=255)

                                                                                                           ccATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAAc                                                                           <  2:475732/81‑1 (MQ=255)

                                                                                                            cATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGgcg                                                                                                >  1:445995/1‑59 (MQ=255)

                                                                                                            cATCGCGC‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGgcg                                                                                                <  2:445995/59‑1 (MQ=255)

                                                                                                                   c‑‑‑TGGTGGTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGCTGGACTCCCAGAACAACCCGGCGAAAGAGCTGGCGAACGTGCAgg         >  1:25352/1‑139 (MQ=255)

                                                                                                                       tggtggTCTCCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGCTGGACTCCCAGAACAACCCGGCGAAAGAGCTGGCGAACGTGCAGGa        >  2:349241/1‑139 (MQ=255)

                                                                                                                             tctcCATGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGCTGGACTCCCAGAACAACCCGGCGAAAGAGCTGGCGAACGTGCAGGACTTAAc  >  2:268815/1‑139 (MQ=255)

ATAACGACTACAGGACATCTTGAATATGAACATGAAAAAACTGGCTACCCTGGTTTCCGCTGTTGCGCTAAGCGCCACCGTCAGTGCGAATGCGATGGCAAAAGACACCATCGCGC‑‑‑TGGTGGTCTCCACGCTTAACAACCCGTTCTTTGTATCGCTGAAAGATGGCGCGCAGAAAGAGGCGGATAAACTTGGCTATAACCTGGTGGTGCTGGACTCCCAGAACAACCCGGCGAAAGAGCTGGCGAACGTGCAGGACTTAAC  >  NC_000913/3936253‑3936513

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A