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
A10 F1 I2 R1	757	38.1	1607544	96.5%	1551279	117.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,489,643	C→T	A141T (GCT→ACT)	yjgR ←	DUF853 family protein with NTPase fold

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,489,643	0	C	T	97.2%	109.1 / NA	36	A141T (GCT→ACT)	yjgR	DUF853 family protein with NTPase fold
Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (19/16); minor base A (1/0); total (20/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GCTGGATGGCACCAACCGATGCGCTACTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGCAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCAC  >  NC_000913/4489511‑4489773

gcTGGATGGCACCAACCGATGCGCTACTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCg                                                                                                                              <  1:685969/139‑1 (MQ=255)

              aCCGATGCGCTACTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCa                                                                                                                >  2:616992/1‑139 (MQ=255)

              aCCGATGCGCTACTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCa                                                                                                                >  1:551739/1‑139 (MQ=255)

               ccGATGCGCTACTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAg                                                                                                               <  2:238368/139‑1 (MQ=255)

                          cTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGAACTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGAtt                                                                                                    >  2:623454/1‑139 (MQ=255)

                              tagtACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGcac                                                                                                <  2:452778/136‑1 (MQ=255)

                               atTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGcaca                                                                                               <  2:624633/139‑1 (MQ=255)

                                  aCCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCg                                                                                            >  1:758922/1‑139 (MQ=255)

                                    cGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGtt                                                                                          >  2:376273/1‑139 (MQ=255)

                                    cGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGtt                                                                                          >  1:327939/1‑139 (MQ=255)

                                        cTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGTTCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGCCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTgaga                                                                                      >  2:583159/1‑139 (MQ=255)

                                           aTTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTc                                                                                   >  2:576206/1‑139 (MQ=255)

                                           aTTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTc                                                                                   >  2:481710/1‑139 (MQ=255)

                                                  aaGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTc                                                                            <  1:158290/139‑1 (MQ=255)

                                                              ttATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACa                                                                <  1:583159/139‑1 (MQ=255)

                                                                      gATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGcccc                                                        <  2:551739/139‑1 (MQ=255)

                                                                              gggTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGa                                                <  2:758922/139‑1 (MQ=255)

                                                                                    ttGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGt                                          >  1:494500/1‑139 (MQ=255)

                                                                                    ttGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGt                                          >  1:229712/1‑139 (MQ=255)

                                                                                      gCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCg                                        >  2:79061/1‑139 (MQ=255)

                                                                                           cAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTg                                                                                         >  2:272986/1‑85 (MQ=255)

                                                                                           cAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTg                                                                                         <  1:272986/85‑1 (MQ=255)

                                                                                                      aGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCa                                                       >  2:331695/1‑108 (MQ=255)

                                                                                                      aGTCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCa                                                       <  1:331695/108‑1 (MQ=255)

                                                                                                        tCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGGTTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGc                                       <  1:523227/122‑1 (MQ=255)

                                                                                                        tCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGc                                       >  2:523227/1‑122 (MQ=255)

                                                                                                        tCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGc                                       >  2:554606/1‑122 (MQ=255)

                                                                                                        tCGAGCAGTAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGc                                       <  1:554606/122‑1 (MQ=255)

                                                                                                          gAGCAGTCACAGCCCCTGCTCGCCAGAAATGCGGAAGATGATATTCAGCACGCTAGATTGCACCTCGTTGACATTCAACAGTCGTGCGCGCGACACCGGCCCCAGATCCGAAACCGTCGCCCTCACCGGATGGCCTTtc                    >  1:412726/1‑139 (MQ=255)

                                                                                                                tAACAGCCCCTGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCGACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCa              <  2:327939/139‑1 (MQ=255)

                                                                                                                          tGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGca                                                                                                 <  1:800627/46‑1 (MQ=255)

                                                                                                                          tGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGca                                                                                                 >  2:800627/1‑46 (MQ=255)

                                                                                                                          tGATCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATccc    >  1:442210/1‑139 (MQ=255)

                                                                                                                            aTCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCgg                                                            <  1:743045/81‑1 (MQ=255)

                                                                                                                            aTCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCgg                                                            >  2:743045/1‑81 (MQ=255)

                                                                                                                            aTCGTCAGTAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCcac  <  1:627306/139‑1 (MQ=255)

GCTGGATGGCACCAACCGATGCGCTACTGATATTACCGTACTGATTCTGGAAGGATTTGGCGTTATCGCCGATGTACTGGGTAATTGCCCGCAGATCTTTAAAGTCGAGCAGTAACAGCCCCTGATCGTCAGCAATGCGGAAGATGATATTCAGCACGCCAGATTGCACATCGTTGAGATTCAACAGTCGTGCCAGCAACAGCGGCCCCAGATCCGAAACCGTCGCCCGCACCGGATGGCCTTTCTCGCCAAAGATATCCCAC  >  NC_000913/4489511‑4489773

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A