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	1,905,805	G→A	G40S (GGC→AGC)	mntP →	putative Mn(2+) efflux pump, mntR‑regulated

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,905,805	0	G	A	100.0%	164.9 / NA	51	G40S (GGC→AGC)	mntP	putative Mn(2+) efflux pump, mntR‑regulated
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (26/25); total (26/25)

ATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCGGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCGGCGGGCGAATG  >  NC_000913/1905682‑1905939

aTTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATTGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTg                                                                                                                         <  1:1456307/139‑1 (MQ=255)

            atCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAAccc                                                                                                             >  2:1062627/1‑139 (MQ=255)

            atCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAAccc                                                                                                             >  2:513626/1‑139 (MQ=255)

              cACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTg                                                                                                           >  1:1217475/1‑139 (MQ=255)

                  gCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAATCCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcgc                                                                                                       <  1:1600253/139‑1 (MQ=255)

                         ttcttcTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                <  2:1332977/139‑1 (MQ=255)

                         ttcttcTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                <  1:14952/139‑1 (MQ=255)

                         ttcttcTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                >  1:1332977/1‑139 (MQ=255)

                              cttGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGc                                                                                                                        <  2:558391/110‑1 (MQ=255)

                              cttGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGc                                                                                                                        >  1:558391/1‑110 (MQ=255)

                                   gTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGa                                                                                      <  2:1217475/139‑1 (MQ=255)

                                   gTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGa                                                                                      <  1:513626/139‑1 (MQ=255)

                                             tCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGt                                                                            >  2:1234549/1‑139 (MQ=255)

                                              cGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGtt                                                                           >  2:725350/1‑139 (MQ=255)

                                                 tggatgCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTagc                                                                        >  1:10642/1‑139 (MQ=255)

                                                      gCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTagccagcc                                                                   >  2:916419/1‑139 (MQ=255)

                                                       cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                                  <  1:1393405/91‑1 (MQ=255)

                                                       cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGa                                                                                                                  >  2:1393405/1‑91 (MQ=255)

                                                       cATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCg                                                                  >  1:1028652/1‑139 (MQ=255)

                                                         tttGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGt                                                                <  1:916419/139‑1 (MQ=255)

                                                         tttGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGt                                                                <  1:1000404/139‑1 (MQ=255)

                                                           tgctgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTACGAACCAGctt                                                                                                                                    >  1:941899/1‑67 (MQ=255)

                                                           tgctgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTACGAACCAGCCt                                                                                                                                    <  2:941899/69‑1 (MQ=255)

                                                              tgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                <  2:163037/102‑1 (MQ=255)

                                                              tgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                >  1:163037/1‑102 (MQ=255)

                                                              tgcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTc                                                           >  2:712970/1‑139 (MQ=255)

                                                               gcATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTcc                                                          <  1:929122/139‑1 (MQ=255)

                                                                    aaTCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGc                                                                                                                                      >  1:46051/1‑58 (MQ=255)

                                                                                 gCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGa                                        <  2:1028652/139‑1 (MQ=255)

                                                                                  ccACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTcc                                                          <  1:1280103/120‑1 (MQ=255)

                                                                                  ccACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTcc                                                          >  2:1280103/1‑120 (MQ=255)

                                                                                        tCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGa                                                                                      <  1:538367/86‑1 (MQ=255)

                                                                                        tCCATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGa                                                                                      >  2:538367/1‑86 (MQ=255)

                                                                                         ccATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                >  2:189567/1‑75 (MQ=255)

                                                                                         ccATAAACCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                <  1:189567/75‑1 (MQ=255)

                                                                                               aCCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                <  1:796111/69‑1 (MQ=255)

                                                                                               aCCGAAATTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                >  2:796111/1‑69 (MQ=255)

                                                                                                  gAAATTTTCTGAAGCATTGCGATCCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcgc                                                                                                       >  2:173216/1‑59 (MQ=255)

                                                                                                  gAAATTTTCTGAAGCATTGCGATCCAGCCTTATTTTTGGTGCCGTCGAAACCCTGAcgc                                                                                                       <  1:173216/59‑1 (MQ=255)

                                                                                                    aaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTg                                                                                                                         <  1:957544/39‑1 (MQ=255)

                                                                                                    aaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTg                                                                                                                         >  2:957544/1‑39 (MQ=255)

                                                                                                    aaTTTTCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGat                     >  1:1070320/1‑139 (MQ=255)

                                                                                                         tCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAAt                                                    <  2:329343/103‑1 (MQ=255)

                                                                                                         tCTGAAGCATTGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAAt                                                    >  1:329343/1‑103 (MQ=255)

                                                                                                                  ttGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                <  2:1317928/50‑1 (MQ=255)

                                                                                                                  ttGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGAt                                                                                                >  1:1317928/1‑50 (MQ=255)

                                                                                                                   tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGaa                                                >  2:1088950/1‑97 (MQ=255)

                                                                                                                   tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGaa                                                <  1:1088950/97‑1 (MQ=255)

                                                                                                                   tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCggcgggcg      >  2:1407849/1‑139 (MQ=255)

                                                                                                                   tGCGAACCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCggcgggcg      <  1:1234549/139‑1 (MQ=255)

                                                                                                                       aaCCAGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCGGCGGGCGAATg  <  1:712970/139‑1 (MQ=255)

ATTGTCATGAATATCACTGCTACTGTTCTTCTTGCGTTTGGTATGTCGATGGATGCATTTGCTGCATCAATCGGTAAAGGTGCCACCCTCCATAAACCGAAATTTTCTGAAGCATTGCGAACCGGCCTTATTTTTGGTGCCGTCGAAACCCTGACGCCGCTGATCGGCTGGGGAATGGGCATGTTAGCCAGCCGGTTTGTCCTTGAATGGAACCACTGGATTGCGTTTGTGCTGCTGATATTCCTCGGCGGGCGAATG  >  NC_000913/1905682‑1905939

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